SRD build issue: Python installation fails

alan-turing-institute / data-safe-haven

https://data-safe-haven.readthedocs.io

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SRD build issue: Python installation fails #1493

Closed edwardchalstrey1 closed 1 year ago

edwardchalstrey1 commented 1 year ago

:white_check_mark: Checklist

[x] I have searched open and closed issues for duplicates.
[x] This is a problem observed when deploying a Data Safe Haven.
[x] I can reproduce this with the latest version.
[x] I have read through the documentation.
[x] This isn't an open-ended question (open a discussion if it is).

:computer: System information

Operating System: macOS Ventura 13.4
Data Safe Haven version: 4.0.4

:cactus: Powershell module versions

./CheckRequirements.ps1                                                       2023-06-26 16:05:32 [WARNING]: Powershell version: 7.3.4
2023-06-26 16:05:32 [WARNING]: The currently supported version of Powershell is 7.3.2.
2023-06-26 16:05:32 [WARNING]: In case of errors originating from Powershell code, ensure that you are running the currently supported version.
2023-06-26 16:05:32 [SUCCESS]: [✔] Az.MonitoringSolutions module version: 0.1.0
2023-06-26 16:05:32 [SUCCESS]: [✔] Az.Accounts module version: 2.11.1
2023-06-26 16:05:32 [SUCCESS]: [✔] Microsoft.Graph.Identity.DirectoryManagement module version: 1.21.0
2023-06-26 16:05:32 [SUCCESS]: [✔] Az.DataProtection module version: 0.4.0
2023-06-26 16:05:32 [SUCCESS]: [✔] Powershell-Yaml module version: 0.4.2
2023-06-26 16:05:32 [SUCCESS]: [✔] Az.RecoveryServices module version: 5.4.1
2023-06-26 16:05:32 [SUCCESS]: [✔] Microsoft.Graph.Applications module version: 1.21.0
2023-06-26 16:05:32 [SUCCESS]: [✔] Az.Resources module version: 6.5.1
2023-06-26 16:05:32 [SUCCESS]: [✔] Az.Storage module version: 4.7.0
2023-06-26 16:05:32 [SUCCESS]: [✔] Microsoft.Graph.Authentication module version: 1.21.0
2023-06-26 16:05:32 [SUCCESS]: [✔] Az.PrivateDns module version: 1.0.3
2023-06-26 16:05:32 [SUCCESS]: [✔] Az.Monitor module version: 4.2.0
2023-06-26 16:05:32 [SUCCESS]: [✔] Microsoft.Graph.Users module version: 1.21.0
2023-06-26 16:05:32 [SUCCESS]: [✔] Az.Network module version: 5.3.0
2023-06-26 16:05:32 [SUCCESS]: [✔] Az.KeyVault module version: 4.9.1
2023-06-26 16:05:33 [SUCCESS]: [✔] Poshstache module version: 0.1.10
2023-06-26 16:05:33 [SUCCESS]: [✔] Az.Automation module version: 1.9.0
2023-06-26 16:05:33 [SUCCESS]: [✔] Az.Dns module version: 1.1.2
2023-06-26 16:05:33 [SUCCESS]: [✔] Az.Compute module version: 5.3.0
2023-06-26 16:05:33 [SUCCESS]: [✔] Az.OperationalInsights module version: 3.1.0

:no_entry_sign: Describe the problem

When building an SRE from the release-v4.0.4 branch, the smoke tests fail on all Python versions - inspecting the SRD build log reveals there was a problem with installing Python (see logs below).

:deciduous_tree: Log messages

Failed Python 3.10 installation on candidate VM:

``` • Installing xgboost (1.7.6) ImportError cannot import name 'Python2Supports' from 'virtualenv.create.describe' (/opt/pyenv/versions/3.10.12/lib/python3.10/site-packages/virtualenv/create/describe.py) at /opt/pyenv/versions/3.10.12/lib/python3.10/site-packages/virtualenv/create/via_global_ref/builtin/python2/python2.py:6 in 2│ import json 3│ import os 4│ from pathlib import Path 5│ → 6│ from virtualenv.create.describe import Python2Supports 7│ from virtualenv.create.via_global_ref.builtin.ref import PathRefToDest 8│ from virtualenv.info import IS_ZIPAPP 9│ from virtualenv.util.zipapp import read as read_from_zipapp 10│ • Installing xlrd (2.0.1) Could not install Python 3.10.12! Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:final' at Mon, 26 Jun 2023 15:43:16 +0000. Up 74.00 seconds. 2023-06-26 16:41:23,896 - cc_scripts_user.py[WARNING]: Failed to run module scripts-user (scripts in /var/lib/cloud/instance/scripts) 2023-06-26 16:41:23,897 - util.py[WARNING]: Running module scripts-user () failed System setup through cloud-init is finished. Configuration took 3563.61 seconds ```

Python safety check failure during SRD build

```none Code : ProvisioningState/succeeded Level : Info DisplayStatus : Provisioning succeeded Message : Enable succeeded: [stdout] [2023-06-23 08:47:56: SUCCESS] Build started: [2023-06-23 08:48:54: SUCCESS] Running cloud-init modules: 57s [2023-06-23 09:17:00: SUCCESS] Installing/updating Ubuntu packages: 28m5s [2023-06-23 09:17:33: SUCCESS] Preparing system for installation: 32s [2023-06-23 09:19:51: SUCCESS] Installing additional deb/source packages: 2m18s [2023-06-23 09:24:33: SUCCESS] Updating ClamAV database: 4m42s [2023-06-23 09:25:05: SUCCESS] Installing Spark/Hadoop: 32s [2023-06-23 09:36:18: SUCCESS] Installing Julia and packages: 11m13s [2023-06-23 09:44:07: SUCCESS] Installing Python (3.9.17) and packages: 7m49s [2023-06-23 09:48:33: FAIL ] Installing Python (3.10.12) and packages: 4m26s [2023-06-23 09:48:34: FAIL ] Finished build: 1h0m37s [2023-06-23 09:48:33: INFO ] Memory available: 17 GB [2023-06-23 09:48:33: INFO ] ..... mean usage: 10.39% => 1.7 GB [2023-06-23 09:48:33: INFO ] ...... min usage: 5.38% => 0.9 GB [2023-06-23 09:48:33: INFO ] ...... max usage: 28.45% => 4.8 GB [2023-06-23 09:48:33: INFO ] CPU available: 8 cores [2023-06-23 09:48:33: INFO ] ..... mean usage: 26.19% => 2.1 cores [2023-06-23 09:48:33: INFO ] ...... min usage: 0.10% => 0.0 cores [2023-06-23 09:48:33: INFO ] ...... max usage: 100.00% => 8.0 cores [2023-06-23 09:48:33: WARNING] Safety check found problems with Python 3.9.17 [2023-06-23 09:48:33: WARNING] ... transformers [4.19.2] is affected by issue 51450 (for versions ['<4.23.0']) ```

Failed smoke tests on SRE

```none bats run_all_tests.bats run_all_tests.bats ✓ Julia packages ✓ Julia functionality ✗ Python packages (3.9) (from function `setup_python' in file run_all_tests.bats, line 15, from function `test_python_packages' in file run_all_tests.bats, line 28, in test file run_all_tests.bats, line 67) `test_python_packages '3.9'' failed with status 127 /opt/tests/run_all_tests.bats: line 14: pyenv: command not found /opt/tests/run_all_tests.bats: line 10: pyenv: command not found /opt/tests/run_all_tests.bats: line 15: pyenv: command not found ✗ Python functionality (3.9) (from function `setup_python' in file run_all_tests.bats, line 15, from function `test_python_functionality' in file run_all_tests.bats, line 21, in test file run_all_tests.bats, line 70) `test_python_functionality '3.9'' failed with status 127 /opt/tests/run_all_tests.bats: line 14: pyenv: command not found /opt/tests/run_all_tests.bats: line 10: pyenv: command not found /opt/tests/run_all_tests.bats: line 15: pyenv: command not found ✓ Python virtual environments (3.9) ✗ Python package repository (3.9) (from function `setup_python' in file run_all_tests.bats, line 15, from function `test_python_repository' in file run_all_tests.bats, line 35, in test file run_all_tests.bats, line 76) `test_python_repository '3.9'' failed with status 127 /opt/tests/run_all_tests.bats: line 14: pyenv: command not found /opt/tests/run_all_tests.bats: line 10: pyenv: command not found /opt/tests/run_all_tests.bats: line 15: pyenv: command not found ✗ Python packages (3.10) (from function `setup_python' in file run_all_tests.bats, line 15, from function `test_python_packages' in file run_all_tests.bats, line 28, in test file run_all_tests.bats, line 81) `test_python_packages '3.10'' failed with status 127 /opt/tests/run_all_tests.bats: line 14: pyenv: command not found /opt/tests/run_all_tests.bats: line 10: pyenv: command not found /opt/tests/run_all_tests.bats: line 15: pyenv: command not found ✗ Python functionality (3.10) (from function `setup_python' in file run_all_tests.bats, line 15, from function `test_python_functionality' in file run_all_tests.bats, line 21, in test file run_all_tests.bats, line 85) `test_python_functionality '3.10'' failed with status 127 /opt/tests/run_all_tests.bats: line 14: pyenv: command not found /opt/tests/run_all_tests.bats: line 10: pyenv: command not found /opt/tests/run_all_tests.bats: line 15: pyenv: command not found ✓ Python virtual environments (3.10) ✗ Python package repository (3.10) (from function `setup_python' in file run_all_tests.bats, line 15, from function `test_python_repository' in file run_all_tests.bats, line 35, in test file run_all_tests.bats, line 91) `test_python_repository '3.10'' failed with status 127 /opt/tests/run_all_tests.bats: line 14: pyenv: command not found /opt/tests/run_all_tests.bats: line 10: pyenv: command not found /opt/tests/run_all_tests.bats: line 15: pyenv: command not found ✗ Python packages (3.11) (from function `setup_python' in file run_all_tests.bats, line 15, from function `test_python_packages' in file run_all_tests.bats, line 28, in test file run_all_tests.bats, line 96) `test_python_packages '3.11'' failed with status 127 /opt/tests/run_all_tests.bats: line 14: pyenv: command not found /opt/tests/run_all_tests.bats: line 10: pyenv: command not found /opt/tests/run_all_tests.bats: line 15: pyenv: command not found ✗ Python functionality (3.11) (from function `setup_python' in file run_all_tests.bats, line 15, from function `test_python_functionality' in file run_all_tests.bats, line 21, in test file run_all_tests.bats, line 99) `test_python_functionality '3.11'' failed with status 127 /opt/tests/run_all_tests.bats: line 14: pyenv: command not found /opt/tests/run_all_tests.bats: line 10: pyenv: command not found /opt/tests/run_all_tests.bats: line 15: pyenv: command not found ✓ Python virtual environments (3.11) ✗ Python package repository (3.11) (from function `setup_python' in file run_all_tests.bats, line 15, from function `test_python_repository' in file run_all_tests.bats, line 35, in test file run_all_tests.bats, line 105) `test_python_repository '3.11'' failed with status 127 /opt/tests/run_all_tests.bats: line 14: pyenv: command not found /opt/tests/run_all_tests.bats: line 10: pyenv: command not found /opt/tests/run_all_tests.bats: line 15: pyenv: command not found ✗ R packages (from function `assert_output' in file ../bats/bats-assert/src/assert_output.bash, line 178, in test file run_all_tests.bats, line 114) `assert_output --regexp 'All [0-9]+ packages are installed'' failed -- regular expression does not match output -- regexp (1 lines): All [0-9]+ packages are installed output (2 lines): Error in library(stringr) : there is no package called ‘stringr’ Execution halted -- ✓ R functionality ✓ R package repository ✓ Mounted drives (/data) ✓ Mounted drives (/home) ✓ Mounted drives (/output) ✓ Mounted drives (/shared) ✓ Mounted drives (/scratch) 22 tests, 10 failures ```

:recycle: To reproduce

Build SRD image from 4.0.4 release branch
Deploy SRE using this image

jemrobinson commented 1 year ago

This section of the SRD image building instructions says Please check that everything has built correctly before proceeding.

That wasn't done here, so we'll need to build a new image. Please can you do this and check the build logs before converting the candidate VM into an image? If there's a problem in the image building scripts we can debug that separately.

edwardchalstrey1 commented 1 year ago

If there's a problem in the image building scripts we can debug that separately.

I've ~~built the image~~ gone through the whole process of creating a candidate VM and building an image from it twice now and had the same problem, so that's where the issue lies. Do you have some idea as to why Python might fail a safety check? my thoughts are this is the relevant line of the readout above:

[2023-06-23 09:48:33: WARNING] ... transformers [4.19.2] is affected by issue 51450 (for versions ['<4.23.0'])

transformers is on our tier3 allowlist - but I couldn't see a GitHub issue 51450 on the transformers GH if that's what this means?

edwardchalstrey1 commented 1 year ago

but I guess you're suggesting I create another candidate VM and consult the /var/log/cloud-init-output.log @jemrobinson ?

jemrobinson commented 1 year ago

Yes, that's what I'm suggesting. That contains the full error log and you should be able to see where the error is. As you've already created and deployed a broken image, you can also look at /var/log/cloud-init-output.log in the VM you've just deployed.

edwardchalstrey1 commented 1 year ago

Seems like the error is related to Python2Supports (see full error above), I'll look into this

cannot import name 'Python2Supports' from 'virtualenv.create.describe' (/opt/pyenv/versions/3.10.12/lib/python3.10/site-packages/virtualenv/create/describe.py)

jemrobinson commented 1 year ago

Can you put a longer excerpt from the output log (or a link to the full log) here?

edwardchalstrey1 commented 1 year ago

Result of `tail -f -n+1 /var/log/cloud-init-output.log` on candidate VM

``` [nltk_data] | Unzipping corpora/abc.zip. [nltk_data] | Downloading package alpino to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/alpino.zip. [nltk_data] | Downloading package averaged_perceptron_tagger to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping taggers/averaged_perceptron_tagger.zip. [nltk_data] | Downloading package averaged_perceptron_tagger_ru to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping [nltk_data] | taggers/averaged_perceptron_tagger_ru.zip. [nltk_data] | Downloading package basque_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/basque_grammars.zip. [nltk_data] | Downloading package bcp47 to /usr/share/nltk_data... [nltk_data] | Downloading package biocreative_ppi to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/biocreative_ppi.zip. [nltk_data] | Downloading package bllip_wsj_no_aux to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping models/bllip_wsj_no_aux.zip. [nltk_data] | Downloading package book_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/book_grammars.zip. [nltk_data] | Downloading package brown to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/brown.zip. [nltk_data] | Downloading package brown_tei to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/brown_tei.zip. [nltk_data] | Downloading package cess_cat to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/cess_cat.zip. [nltk_data] | Downloading package cess_esp to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/cess_esp.zip. [nltk_data] | Downloading package chat80 to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/chat80.zip. [nltk_data] | Downloading package city_database to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/city_database.zip. [nltk_data] | Downloading package cmudict to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/cmudict.zip. [nltk_data] | Downloading package comparative_sentences to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/comparative_sentences.zip. [nltk_data] | Downloading package comtrans to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package conll2000 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/conll2000.zip. [nltk_data] | Downloading package conll2002 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/conll2002.zip. [nltk_data] | Downloading package conll2007 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package crubadan to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/crubadan.zip. [nltk_data] | Downloading package dependency_treebank to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/dependency_treebank.zip. [nltk_data] | Downloading package dolch to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/dolch.zip. [nltk_data] | Downloading package europarl_raw to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/europarl_raw.zip. [nltk_data] | Downloading package extended_omw to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package floresta to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/floresta.zip. [nltk_data] | Downloading package framenet_v15 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/framenet_v15.zip. [nltk_data] | Downloading package framenet_v17 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/framenet_v17.zip. [nltk_data] | Downloading package gazetteers to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/gazetteers.zip. [nltk_data] | Downloading package genesis to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/genesis.zip. [nltk_data] | Downloading package gutenberg to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/gutenberg.zip. [nltk_data] | Downloading package ieer to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/ieer.zip. [nltk_data] | Downloading package inaugural to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/inaugural.zip. [nltk_data] | Downloading package indian to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/indian.zip. [nltk_data] | Downloading package jeita to /usr/share/nltk_data... [nltk_data] | Downloading package kimmo to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/kimmo.zip. [nltk_data] | Downloading package knbc to /usr/share/nltk_data... [nltk_data] | Downloading package large_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/large_grammars.zip. [nltk_data] | Downloading package lin_thesaurus to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/lin_thesaurus.zip. [nltk_data] | Downloading package mac_morpho to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/mac_morpho.zip. [nltk_data] | Downloading package machado to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package masc_tagged to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package maxent_ne_chunker to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping chunkers/maxent_ne_chunker.zip. [nltk_data] | Downloading package maxent_treebank_pos_tagger to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping taggers/maxent_treebank_pos_tagger.zip. [nltk_data] | Downloading package moses_sample to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping models/moses_sample.zip. [nltk_data] | Downloading package movie_reviews to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/movie_reviews.zip. [nltk_data] | Downloading package mte_teip5 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/mte_teip5.zip. [nltk_data] | Downloading package mwa_ppdb to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping misc/mwa_ppdb.zip. [nltk_data] | Downloading package names to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/names.zip. [nltk_data] | Downloading package nombank.1.0 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package nonbreaking_prefixes to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/nonbreaking_prefixes.zip. [nltk_data] | Downloading package nps_chat to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/nps_chat.zip. [nltk_data] | Downloading package omw to /usr/share/nltk_data... [nltk_data] | Downloading package omw-1.4 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package opinion_lexicon to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/opinion_lexicon.zip. [nltk_data] | Downloading package panlex_swadesh to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package paradigms to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/paradigms.zip. [nltk_data] | Downloading package pe08 to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/pe08.zip. [nltk_data] | Downloading package perluniprops to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping misc/perluniprops.zip. [nltk_data] | Downloading package pil to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/pil.zip. [nltk_data] | Downloading package pl196x to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/pl196x.zip. [nltk_data] | Downloading package porter_test to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping stemmers/porter_test.zip. [nltk_data] | Downloading package ppattach to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/ppattach.zip. [nltk_data] | Downloading package problem_reports to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/problem_reports.zip. [nltk_data] | Downloading package product_reviews_1 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/product_reviews_1.zip. [nltk_data] | Downloading package product_reviews_2 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/product_reviews_2.zip. [nltk_data] | Downloading package propbank to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package pros_cons to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/pros_cons.zip. [nltk_data] | Downloading package ptb to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/ptb.zip. [nltk_data] | Downloading package punkt to /usr/share/nltk_data... [nltk_data] | Unzipping tokenizers/punkt.zip. [nltk_data] | Downloading package qc to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/qc.zip. [nltk_data] | Downloading package reuters to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package rslp to /usr/share/nltk_data... [nltk_data] | Unzipping stemmers/rslp.zip. [nltk_data] | Downloading package rte to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/rte.zip. [nltk_data] | Downloading package sample_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/sample_grammars.zip. [nltk_data] | Downloading package semcor to /usr/share/nltk_data... [nltk_data] | Downloading package senseval to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/senseval.zip. [nltk_data] | Downloading package sentence_polarity to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/sentence_polarity.zip. 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[nltk_data] | Downloading package stopwords to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/stopwords.zip. [nltk_data] | Downloading package subjectivity to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/subjectivity.zip. [nltk_data] | Downloading package swadesh to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/swadesh.zip. [nltk_data] | Downloading package switchboard to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/switchboard.zip. [nltk_data] | Downloading package tagsets to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping help/tagsets.zip. [nltk_data] | Downloading package timit to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/timit.zip. [nltk_data] | Downloading package toolbox to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/toolbox.zip. [nltk_data] | Downloading package treebank to [nltk_data] | /usr/share/nltk_data... 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[nltk_data] | Unzipping corpora/verbnet.zip. [nltk_data] | Downloading package verbnet3 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/verbnet3.zip. [nltk_data] | Downloading package webtext to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/webtext.zip. [nltk_data] | Downloading package wmt15_eval to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping models/wmt15_eval.zip. [nltk_data] | Downloading package word2vec_sample to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping models/word2vec_sample.zip. [nltk_data] | Downloading package wordnet to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package wordnet2021 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package wordnet2022 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/wordnet2022.zip. [nltk_data] | Downloading package wordnet31 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package wordnet_ic to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/wordnet_ic.zip. [nltk_data] | Downloading package words to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/words.zip. [nltk_data] | Downloading package ycoe to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/ycoe.zip. [nltk_data] | [nltk_data] Done downloading collection all Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 168, in _load_global_deps ctypes.CDLL(lib_path, mode=ctypes.RTLD_GLOBAL) File "/opt/pyenv/versions/3.9.17/lib/python3.9/ctypes/__init__.py", line 374, in __init__ self._handle = _dlopen(self._name, mode) OSError: libcufft.so.10: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 188, in _run_module_as_main mod_name, mod_spec, code = _get_module_details(mod_name, _Error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 147, in _get_module_details return _get_module_details(pkg_main_name, error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 111, in _get_module_details __import__(pkg_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/__init__.py", line 6, in from .errors import setup_default_warnings File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/errors.py", line 2, in from .compat import Literal File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/compat.py", line 3, in from thinc.util import copy_array File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/__init__.py", line 5, in from .config import registry File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/config.py", line 4, in from .types import Decorator File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/types.py", line 8, in from .compat import has_cupy, cupy File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/compat.py", line 30, in import torch.utils.dlpack File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 228, in _load_global_deps() File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 189, in _load_global_deps _preload_cuda_deps(lib_folder, lib_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 154, in _preload_cuda_deps raise ValueError(f"{lib_name} not found in the system path {sys.path}") ValueError: libcublas.so.*[0-9] not found in the system path ['/', '/opt/pyenv/versions/3.9.17/lib/python39.zip', '/opt/pyenv/versions/3.9.17/lib/python3.9', '/opt/pyenv/versions/3.9.17/lib/python3.9/lib-dynload', '/root/.local/lib/python3.9/site-packages', '/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages'] Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 168, in _load_global_deps ctypes.CDLL(lib_path, mode=ctypes.RTLD_GLOBAL) File "/opt/pyenv/versions/3.9.17/lib/python3.9/ctypes/__init__.py", line 374, in __init__ self._handle = _dlopen(self._name, mode) OSError: libcufft.so.10: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 188, in _run_module_as_main mod_name, mod_spec, code = _get_module_details(mod_name, _Error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 147, in _get_module_details return _get_module_details(pkg_main_name, error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 111, in _get_module_details __import__(pkg_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/__init__.py", line 6, in from .errors import setup_default_warnings File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/errors.py", line 2, in from .compat import Literal File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/compat.py", line 3, in from thinc.util import copy_array File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/__init__.py", line 5, in from .config import registry File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/config.py", line 4, in from .types import Decorator File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/types.py", line 8, in from .compat import has_cupy, cupy File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/compat.py", line 30, in import torch.utils.dlpack File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 228, in _load_global_deps() File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 189, in _load_global_deps _preload_cuda_deps(lib_folder, lib_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 154, in _preload_cuda_deps raise ValueError(f"{lib_name} not found in the system path {sys.path}") ValueError: libcublas.so.*[0-9] not found in the system path ['/', '/opt/pyenv/versions/3.9.17/lib/python39.zip', '/opt/pyenv/versions/3.9.17/lib/python3.9', '/opt/pyenv/versions/3.9.17/lib/python3.9/lib-dynload', '/root/.local/lib/python3.9/site-packages', '/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages'] Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 168, in _load_global_deps ctypes.CDLL(lib_path, mode=ctypes.RTLD_GLOBAL) File "/opt/pyenv/versions/3.9.17/lib/python3.9/ctypes/__init__.py", line 374, in __init__ self._handle = _dlopen(self._name, mode) OSError: libcufft.so.10: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 188, in _run_module_as_main mod_name, mod_spec, code = _get_module_details(mod_name, _Error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 147, in _get_module_details return _get_module_details(pkg_main_name, error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 111, in _get_module_details __import__(pkg_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/__init__.py", line 6, in from .errors import setup_default_warnings File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/errors.py", line 2, in from .compat import Literal File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/compat.py", line 3, in from thinc.util import copy_array File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/__init__.py", line 5, in from .config import registry File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/config.py", line 4, in from .types import Decorator File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/types.py", line 8, in from .compat import has_cupy, cupy File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/compat.py", line 30, in import torch.utils.dlpack File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 228, in _load_global_deps() File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 189, in _load_global_deps _preload_cuda_deps(lib_folder, lib_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 154, in _preload_cuda_deps raise ValueError(f"{lib_name} not found in the system path {sys.path}") ValueError: libcublas.so.*[0-9] not found in the system path ['/', '/opt/pyenv/versions/3.9.17/lib/python39.zip', '/opt/pyenv/versions/3.9.17/lib/python3.9', '/opt/pyenv/versions/3.9.17/lib/python3.9/lib-dynload', '/root/.local/lib/python3.9/site-packages', '/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages'] All requested Python 3.9.17 packages are installed Running safety check on Python 3.9.17 installation... +==============================================================================+ /$$$$$$ /$$ /$$__ $$ | $$ /$$$$$$$ /$$$$$$ | $$ \__//$$$$$$ /$$$$$$ /$$ /$$ /$$_____/ |____ $$| $$$$ /$$__ $$|_ $$_/ | $$ | $$ | $$$$$$ /$$$$$$$| $$_/ | $$$$$$$$ | $$ | $$ | $$ \____ $$ /$$__ $$| $$ | $$_____/ | $$ /$$| $$ | $$ /$$$$$$$/| $$$$$$$| $$ | $$$$$$$ | $$$$/| $$$$$$$ |_______/ \_______/|__/ \_______/ \___/ \____ $$ /$$ | $$ | $$$$$$/ by pyup.io \______/ +==============================================================================+ REPORT Safety is using PyUp's free open-source vulnerability database. This data is 30 days old and limited. For real-time enhanced vulnerability data, fix recommendations, severity reporting, cybersecurity support, team and project policy management and more sign up at https://pyup.io or email sales@pyup.io Safety v2.4.0b1 is scanning for Vulnerabilities... Scanning dependencies in your environment: -> /opt/pyenv/versions/3.9.17/lib/python39.zip -> /root/.local/lib/python3.9/site-packages -> /opt/pyenv/versions/3.9.17/lib/python3.9 -> /opt/pyenv/versions/3.9.17/lib/python3.9/site-packages -> /opt/pyenv/versions/3.9.17/bin -> /opt/pyenv/versions/3.9.17/lib/python3.9/lib-dynload Using open-source vulnerability database Found and scanned 319 packages Timestamp 2023-06-27 11:27:30 1 vulnerability reported 0 vulnerabilities ignored +==============================================================================+ VULNERABILITIES REPORTED +==============================================================================+ -> Vulnerability found in transformers version 4.19.2 Vulnerability ID: 51450 Affected spec: <4.23.0 ADVISORY: Transformers 4.23.0 includes a fix for a link vulnerable to... PVE-2022-51450 For more information about this vulnerability, visit https://pyup.io/v/51450/97c To ignore this vulnerability, use PyUp vulnerability id 51450 in safety’s ignore command-line argument or add the ignore to your safety policy file. +==============================================================================+ REMEDIATIONS 1 vulnerability was reported in 1 package. For detailed remediation & fix recommendations, upgrade to a commercial license. +==============================================================================+ Scan was completed. 1 vulnerability was reported. +==============================================================================+ Safety is using PyUp's free open-source vulnerability database. This data is 30 days old and limited. For real-time enhanced vulnerability data, fix recommendations, severity reporting, cybersecurity support, team and project policy management and more sign up at https://pyup.io or email sales@pyup.io +==============================================================================+ >=== 1687865253 Installing Python (3.10.12) and packages ===< Downloading Python-3.10.12.tar.xz... -> https://www.python.org/ftp/python/3.10.12/Python-3.10.12.tar.xz Installing Python-3.10.12... Installed Python-3.10.12 to /opt/pyenv/versions/3.10.12 Installed Python 3.10.12 Installing and upgrading installation prerequisites for Python 3.10.12... Requirement already satisfied: pip in /opt/pyenv/versions/3.10.12/lib/python3.10/site-packages (23.0.1) Collecting pip Using cached pip-23.1.2-py3-none-any.whl (2.1 MB) Collecting poetry Using cached poetry-1.5.1-py3-none-any.whl (225 kB) Collecting urllib3<2.0.0,>=1.26.0 Using cached urllib3-1.26.16-py2.py3-none-any.whl (143 kB) Collecting packaging>=20.4 Using cached packaging-23.1-py3-none-any.whl (48 kB) Collecting html5lib<2.0,>=1.0 Using cached html5lib-1.1-py2.py3-none-any.whl (112 kB) Collecting lockfile<0.13.0,>=0.12.2 Using cached lockfile-0.12.2-py2.py3-none-any.whl (13 kB) Collecting jsonschema<5.0.0,>=4.10.0 Using cached jsonschema-4.17.3-py3-none-any.whl (90 kB) Collecting cleo<3.0.0,>=2.0.0 Using cached cleo-2.0.1-py3-none-any.whl (77 kB) Collecting poetry-core==1.6.1 Using cached poetry_core-1.6.1-py3-none-any.whl (450 kB) Collecting poetry-plugin-export<2.0.0,>=1.4.0 Using cached poetry_plugin_export-1.4.0-py3-none-any.whl (10 kB) Collecting filelock<4.0.0,>=3.8.0 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Collecting requests-toolbelt<2,>=0.9.1 Using cached requests_toolbelt-1.0.0-py2.py3-none-any.whl (54 kB) Collecting trove-classifiers>=2022.5.19 Using cached trove_classifiers-2023.5.24-py3-none-any.whl (13 kB) Collecting pexpect<5.0.0,>=4.7.0 Using cached pexpect-4.8.0-py2.py3-none-any.whl (59 kB) Collecting dulwich<0.22.0,>=0.21.2 Downloading dulwich-0.21.5-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (510 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 510.1/510.1 kB 23.1 MB/s eta 0:00:00 Collecting crashtest<0.5.0,>=0.4.1 Using cached crashtest-0.4.1-py3-none-any.whl (7.6 kB) Collecting tomli<3.0.0,>=2.0.1 Using cached tomli-2.0.1-py3-none-any.whl (12 kB) Collecting pkginfo<2.0.0,>=1.9.4 Using cached pkginfo-1.9.6-py3-none-any.whl (30 kB) Collecting msgpack>=0.5.2 Downloading msgpack-1.0.5-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (316 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 316.8/316.8 kB 18.1 MB/s eta 0:00:00 Collecting rapidfuzz<3.0.0,>=2.2.0 Downloading rapidfuzz-2.15.1-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (3.0 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.0/3.0 MB 60.0 MB/s eta 0:00:00 Collecting six>=1.9 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB) Collecting webencodings Using cached webencodings-0.5.1-py2.py3-none-any.whl (11 kB) Collecting pyrsistent!=0.17.0,!=0.17.1,!=0.17.2,>=0.14.0 Using cached pyrsistent-0.19.3-py3-none-any.whl (57 kB) Collecting attrs>=17.4.0 Using cached attrs-23.1.0-py3-none-any.whl (61 kB) Collecting jeepney>=0.4.2 Using cached jeepney-0.8.0-py3-none-any.whl (48 kB) Collecting importlib-metadata>=4.11.4 Using cached importlib_metadata-6.7.0-py3-none-any.whl (22 kB) Collecting jaraco.classes Using cached jaraco.classes-3.2.3-py3-none-any.whl (6.0 kB) Collecting SecretStorage>=3.2 Using cached SecretStorage-3.3.3-py3-none-any.whl (15 kB) Collecting ptyprocess>=0.5 Using cached ptyprocess-0.7.0-py2.py3-none-any.whl (13 kB) Collecting certifi>=2017.4.17 Using cached certifi-2023.5.7-py3-none-any.whl (156 kB) Collecting idna<4,>=2.5 Using cached idna-3.4-py3-none-any.whl (61 kB) Collecting charset-normalizer<4,>=2 Downloading charset_normalizer-3.1.0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (199 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 199.3/199.3 kB 8.4 MB/s eta 0:00:00 Collecting distlib<1,>=0.3.6 Using cached distlib-0.3.6-py2.py3-none-any.whl (468 kB) Collecting zipp>=0.5 Using cached zipp-3.15.0-py3-none-any.whl (6.8 kB) Collecting cryptography>=2.0 Using cached cryptography-41.0.1-cp37-abi3-manylinux_2_28_x86_64.whl (4.3 MB) Collecting more-itertools Using cached more_itertools-9.1.0-py3-none-any.whl (54 kB) Collecting cffi>=1.12 Downloading cffi-1.15.1-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (441 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 441.8/441.8 kB 18.5 MB/s eta 0:00:00 Collecting pycparser Using cached pycparser-2.21-py2.py3-none-any.whl (118 kB) Installing collected packages: webencodings, trove-classifiers, ptyprocess, msgpack, lockfile, distlib, zipp, urllib3, tomlkit, tomli, six, shellingham, rapidfuzz, pyrsistent, pycparser, poetry-core, platformdirs, pkginfo, pip, pexpect, packaging, more-itertools, jeepney, installer, idna, filelock, crashtest, charset-normalizer, certifi, attrs, virtualenv, requests, pyproject-hooks, jsonschema, jaraco.classes, importlib-metadata, html5lib, dulwich, cleo, cffi, requests-toolbelt, cryptography, cachecontrol, build, SecretStorage, keyring, poetry-plugin-export, poetry Attempting uninstall: pip Found existing installation: pip 23.0.1 Uninstalling pip-23.0.1: Successfully uninstalled pip-23.0.1 Successfully installed SecretStorage-3.3.3 attrs-23.1.0 build-0.10.0 cachecontrol-0.12.14 certifi-2023.5.7 cffi-1.15.1 charset-normalizer-3.1.0 cleo-2.0.1 crashtest-0.4.1 cryptography-41.0.1 distlib-0.3.6 dulwich-0.21.5 filelock-3.12.2 html5lib-1.1 idna-3.4 importlib-metadata-6.7.0 installer-0.7.0 jaraco.classes-3.2.3 jeepney-0.8.0 jsonschema-4.17.3 keyring-23.13.1 lockfile-0.12.2 more-itertools-9.1.0 msgpack-1.0.5 packaging-23.1 pexpect-4.8.0 pip-23.1.2 pkginfo-1.9.6 platformdirs-3.8.0 poetry-1.5.1 poetry-core-1.6.1 poetry-plugin-export-1.4.0 ptyprocess-0.7.0 pycparser-2.21 pyproject-hooks-1.0.0 pyrsistent-0.19.3 rapidfuzz-2.15.1 requests-2.31.0 requests-toolbelt-1.0.0 shellingham-1.5.0.post1 six-1.16.0 tomli-2.0.1 tomlkit-0.11.8 trove-classifiers-2023.5.24 urllib3-1.26.16 virtualenv-20.23.1 webencodings-0.5.1 zipp-3.15.0 WARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv Installing packages with poetry... Skipping virtualenv creation, as specified in config file. Using version ^0.15.1 for arviz Using version ^4.12.2 for beautifulsoup4 Using version ^23.3.0 for black Using version ^0.29.35 for cython Using version ^2.11.0 for dash Using version ^2023.6.1 for dask Using version ^0.12.2 for flair Using version ^6.0.0 for flake8 Using version ^0.14.0 for folium Using version ^4.3.1 for gensim Using version ^0.13.2 for geopandas Using version ^0.26.2 for gym Using version ^1.1 for html5lib Using version ^6.23.3 for ipykernel Using version ^2.12.0 for keras Using version ^3.3.5 for lightgbm Using version ^4.9.2 for lxml Using version ^3.7.1 for matplotlib Using version ^3.8.1 for nltk Using version ^0.57.1 for numba Using version ^2.0.2 for pandas Using version ^0.7.3 for pandasql Using version ^0.3.0 for pathos Using version ^1.29.8 for pg8000 Using version ^9.5.0 for pillow Using version ^5.15.0 for plotly Using version ^1.1.4 for prophet Using version ^2.9.6 for psycopg2 Using version ^1.4.2 for pydot Using version ^2.1.4 for pygrib Using version ^2.17.4 for pylint Using version ^5.5.0 for pymc Using version ^4.0.39 for pyodbc Using version ^3.6.0 for pyproj Using version ^2.3.1 for pyshp Using version ^3.7.0 for pystan Using version ^7.4.0 for pytest Using version ^6.0 for pyyaml Using version ^2023.6.3 for regex Using version ^2.31.0 for requests Using version ^2.3.5 for safety Using version ^1.2.2 for scikit-learn Using version ^1.11.0 for scipy Using version ^0.12.2 for seaborn Using version ^0.1.2 for spacy-langdetect Using version ^3.5.3 for spacy Using version ^7.0.1 for sphinx Using version ^2.0.17 for sqlalchemy Using version ^1.12 for sympy Using version ^3.8.0 for tables Using version ^2.12.0 for tensorflow Using version ^8.1.10 for thinc Using version ^2.0.1 for torch Using version ^0.15.2 for torchvision Using version ^0.20.1 for tsfresh Using version ^1.9.2 for wordcloud Using version ^2.0.1 for xlrd Updating dependencies Resolving dependencies... Package operations: 270 installs, 12 updates, 0 removals • Installing frozenlist (1.3.3) • Installing multidict (6.0.4) • Installing multipledispatch (0.6.0) • Installing toolz (0.12.0) • Installing aiosignal (1.3.1) • Installing async-timeout (4.0.2) • Installing logical-unification (0.4.6) • Installing markupsafe (2.1.3) • Installing mpmath (1.3.0) • Installing numpy (1.23.5) • Installing pyasn1 (0.5.0) • Installing python-dateutil (2.8.2) • Installing pytz (2023.3) • Installing tzdata (2023.3) • Installing yarl (1.9.2) • Installing aiohttp (3.8.4) • Installing cachetools (5.3.1) • Installing catalogue (2.0.8) • Installing dill (0.3.6) • Installing cons (0.4.6) • Installing fsspec (2023.6.0) • Installing jmespath (1.0.1) • Installing networkx (3.1) • Installing locket (1.0.0) • Installing jinja2 (3.1.2) • Updating packaging (23.1 -> 23.0) • Installing oauthlib (3.2.2) • Installing pandas (2.0.2) • Installing pyasn1-modules (0.3.0) • Installing pyyaml (6.0) • Installing rsa (4.9) • Installing sympy (1.12) • Installing tqdm (4.65.0) • Installing typing-extensions (4.6.3) • Installing asttokens (2.2.1) • Installing botocore (1.29.161) • Installing click (8.1.3) • Installing cloudpickle (2.2.1) • Installing contourpy (1.1.0) • Installing cycler (0.11.0) • Installing cymem (2.0.7) • Installing etuples (0.3.9) • Installing executing (1.2.0) • Installing google-auth (2.21.0) • Installing fonttools (4.40.0) • Installing h5py (3.9.0) • Installing huggingface-hub (0.15.1) • Installing kiwisolver (1.4.4) • Installing llvmlite (0.40.1) • Installing marshmallow (3.19.0) • Installing multiprocess (0.70.14) • Installing murmurhash (1.0.9) • Installing parso (0.8.3) • Installing partd (1.4.0) • Installing pillow (9.5.0) • Updating platformdirs (3.8.0 -> 2.6.2) • Installing pure-eval (0.2.2) • Installing pyarrow (12.0.1) • Installing pydantic (1.10.9) • Installing pyparsing (3.1.0) • Installing pysocks (1.7.1) • Installing regex (2023.6.3) • Installing requests-oauthlib (1.3.1) • Installing scipy (1.11.0) • Installing smart-open (6.3.0) • Installing soupsieve (2.4.1) • Installing srsly (2.4.6) • Installing tokenizers (0.12.1) • Installing torch (2.0.1) • Installing traitlets (5.9.0) • Installing wcwidth (0.2.6) • Installing xarray (2023.6.0) • Installing xxhash (3.2.0) • Installing absl-py (1.4.0) • Installing appdirs (1.4.4) • Installing asn1crypto (1.5.1) • Installing backcall (0.2.0) • Installing beautifulsoup4 (4.12.2) • Installing blis (0.7.9) • Installing click-plugins (1.1.1) • Installing cligj (0.7.2) • Installing confection (0.0.4) • Updating crashtest (0.4.1 -> 0.3.1) • Installing dask (2023.6.1) • Installing datasets (2.13.1) • Installing decorator (5.1.1) • Installing ephem (4.1.4) • Installing exceptiongroup (1.1.1) • Installing future (0.18.3) • Installing gensim (4.3.1) • Installing google-auth-oauthlib (1.0.0) • Installing greenlet (2.0.2) • Installing grpcio (1.56.0) • Installing h5netcdf (1.2.0) • Installing iniconfig (2.0.0) • Installing itsdangerous (2.1.2) • Installing jedi (0.18.2) • Installing joblib (1.2.0) • Installing jupyter-core (5.3.1) • Installing lazy-object-proxy (1.9.0) • Installing markdown (3.4.3) • Installing matplotlib (3.7.1) • Installing matplotlib-inline (0.1.6) • Installing minikanren (1.0.3) • Installing ml-dtypes (0.2.0) • Installing numba (0.57.1) • Installing opt-einsum (3.3.0) • Installing pastel (0.2.1) • Installing patsy (0.5.3) • Installing pickleshare (0.7.5) • Installing pluggy (1.2.0) • Updating poetry-core (1.6.1 -> 1.3.2) • Installing preshed (3.0.8) • Installing prompt-toolkit (3.0.38) • Installing protobuf (4.23.3) • Installing psutil (5.9.5) • Installing py4j (0.10.9.7) • Installing pygments (2.15.1) • Installing pylev (1.4.0) • Installing pymeeus (0.5.12) • Installing pyzmq (25.1.0) • Installing ruamel-yaml-clib (0.2.7) • Installing s3transfer (0.6.1) • Installing sentencepiece (0.1.99) • Updating setuptools (65.5.0 -> 68.0.0) • Installing sortedcontainers (2.4.0) • Installing stack-data (0.6.2) • Installing tblib (2.0.0) • Installing tenacity (8.2.2) • Installing tensorboard-data-server (0.7.1) • Installing threadpoolctl (3.1.0) • Installing tornado (6.3.2) • Installing transformers (4.19.2) • Installing typer (0.7.0) • Installing wasabi (1.1.2) • Installing webargs (8.2.0) • Installing werkzeug (2.2.3) • Installing wheel (0.40.0) • Installing wrapt (1.14.1) • Installing xarray-einstats (0.5.1) • Installing zict (3.0.0) • Installing alabaster (0.7.13) • Installing ansi2html (1.8.0) • Installing arviz (0.15.1) • Installing astroid (2.15.5) • Installing astunparse (1.6.3) • Installing babel (2.12.1) • Installing blosc2 (2.0.0) • Installing boto3 (1.26.161) • Installing bpemb (0.3.4) • Installing branca (0.6.0) • Installing cachy (0.3.0) • Updating cleo (2.0.1 -> 1.0.0a5) • Installing clikit (0.6.2) • Installing cmdstanpy (1.1.0) • Installing comm (0.1.3) • Installing conllu (4.5.3) • Installing convertdate (2.4.0) • Installing cython (0.29.35) • Installing dash-core-components (2.0.0) • Installing dash-html-components (2.0.0) • Installing dash-table (5.0.0) • Installing debugpy (1.6.7) • Installing deprecated (1.2.14) • Installing distributed (2023.6.1) • Installing docutils (0.20.1) • Installing dparse (0.6.3) • Updating dulwich (0.21.5 -> 0.20.50) • Installing fastprogress (1.0.3) • Installing fiona (1.9.4.post1) • Installing flask (2.2.5) • Installing flatbuffers (23.5.26) • Installing ftfy (6.1.1) • Installing gast (0.4.0) • Installing gdown (4.4.0) • Installing google-pasta (0.2.0) • Installing gym-notices (0.0.8) • Installing holidays (0.27.1) • Installing httpstan (4.10.1) • Installing hyperopt (0.2.7) • Installing imageio (2.31.1) • Installing imagesize (1.4.1) • Installing importlib-resources (5.12.0) • Installing ipython (8.14.0) • Installing isort (5.12.0) • Installing janome (0.4.2) • Installing jax (0.4.13) • Installing jupyter-client (8.3.0) • Installing keras (2.12.0) • Updating keyring (23.13.1 -> 24.2.0) • Installing langcodes (3.3.0) • Installing langdetect (1.0.7) • Installing lazy-loader (0.2) • Installing libclang (16.0.0) • Installing lunarcalendar (0.0.9) • Installing lxml (4.9.2) • Installing mccabe (0.7.0) • Installing mpld3 (0.3) • Installing mypy-extensions (1.0.0) • Installing nest-asyncio (1.5.6) • Installing numexpr (2.8.4) • Installing pathspec (0.11.1) • Installing pathy (0.10.2) • Installing plotly (5.15.0) • Updating poetry-plugin-export (1.4.0 -> 1.2.0) • Installing pox (0.3.2) • Installing ppft (1.7.6.6) • Installing pptree (3.1) • Installing py-cpuinfo (9.0.0) • Installing pycodestyle (2.10.0) • Installing pyflakes (3.0.1) • Installing pyproj (3.6.0) • Installing pysimdjson (5.0.2) • Installing pytensor (2.12.3) • Installing pytest (7.4.0) • Installing pytorch-revgrad (0.2.0) • Installing pywavelets (1.4.1) • Updating requests-toolbelt (1.0.0 -> 0.9.1) • Installing retrying (1.3.4) • Installing ruamel-yaml (0.17.32) • Installing scikit-learn (1.2.2) • Installing scramp (1.4.4) • Installing segtok (1.5.11) • Installing shapely (2.0.1) • Installing snowballstemmer (2.2.0) • Installing spacy-legacy (3.0.12) • Installing spacy-loggers (1.0.4) • Installing sphinxcontrib-applehelp (1.0.4) • Installing sphinxcontrib-devhelp (1.0.2) • Installing sphinxcontrib-htmlhelp (2.0.1) • Installing sphinxcontrib-jsmath (1.0.1) • Installing sphinxcontrib-qthelp (1.0.3) • Installing sphinxcontrib-serializinghtml (1.1.5) • Installing sqlalchemy (2.0.17) • Installing sqlitedict (2.1.0) • Installing statsmodels (0.14.0) • Installing stumpy (1.11.1) • Installing tabulate (0.9.0) • Installing tensorboard (2.12.3) • Installing tensorflow-estimator (2.12.0) • Installing tensorflow-io-gcs-filesystem (0.32.0) • Installing termcolor (2.3.0) • Installing thinc (8.1.10) • Installing tifffile (2023.4.12) • Installing transformer-smaller-training-vocab (0.2.4) • Updating virtualenv (20.23.1 -> 20.21.1) • Installing wikipedia-api (0.5.8) • Installing black (23.3.0) • Installing dash (2.11.0) • Installing flair (0.12.2) • Installing flake8 (6.0.0) • Installing folium (0.14.0) • Installing geopandas (0.13.2) • Installing gym (0.26.2) • Installing ipykernel (6.23.3) • Installing lightgbm (3.3.5) • Installing nltk (3.8.1) • Installing pandasql (0.7.3) • Installing pathos (0.3.0) • Installing pg8000 (1.29.8) • Updating poetry (1.5.1 -> 1.2.2) • Installing prophet (1.1.4) • Installing psycopg2 (2.9.6) • Installing pydot (1.4.2) • Installing pygrib (2.1.4) • Installing pylint (2.17.4) • Installing pymc (5.5.0) • Installing pyodbc (4.0.39) • Installing pyshp (2.3.1) • Installing pystan (3.7.0) • Installing safety (2.4.0b1) • Installing scikit-image (0.21.0) • Installing seaborn (0.12.2) • Installing spacy (3.5.3) • Installing spacy-langdetect (0.1.2) • Installing sphinx (7.0.1) • Installing tables (3.8.0) • Installing tensorflow (2.12.0) • Installing torchvision (0.15.2) • Installing tsfresh (0.20.1) • Installing wordcloud (1.9.2) ImportError cannot import name 'Python2Supports' from 'virtualenv.create.describe' (/opt/pyenv/versions/3.10.12/lib/python3.10/site-packages/virtualenv/create/describe.py) at /opt/pyenv/versions/3.10.12/lib/python3.10/site-packages/virtualenv/create/via_global_ref/builtin/python2/python2.py:6 in 2│ import json 3│ import os 4│ from pathlib import Path 5│ → 6│ from virtualenv.create.describe import Python2Supports 7│ from virtualenv.create.via_global_ref.builtin.ref import PathRefToDest 8│ from virtualenv.info import IS_ZIPAPP 9│ from virtualenv.util.zipapp import read as read_from_zipapp 10│ • Installing xlrd (2.0.1) Could not install Python 3.10.12! Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:final' at Tue, 27 Jun 2023 10:34:17 +0000. Up 73.09 seconds. 2023-06-27 11:31:47,495 - cc_scripts_user.py[WARNING]: Failed to run module scripts-user (scripts in /var/lib/cloud/instance/scripts) 2023-06-27 11:31:47,496 - util.py[WARNING]: Running module scripts-user () failed System setup through cloud-init is finished. Configuration took 3524.29 seconds Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'init-local' at Tue, 27 Jun 2023 12:44:56 +0000. Up 7.08 seconds. Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'init' at Tue, 27 Jun 2023 12:44:59 +0000. Up 9.85 seconds. ci-info: +++++++++++++++++++++++++++++++++++++++Net device info+++++++++++++++++++++++++++++++++++++++ ci-info: +--------+------+------------------------------+---------------+--------+-------------------+ ci-info: | Device | Up | Address | Mask | Scope | Hw-Address | ci-info: +--------+------+------------------------------+---------------+--------+-------------------+ ci-info: | eth0 | True | 10.48.0.6 | 255.255.255.0 | global | 60:45:bd:cf:6e:bf | ci-info: | eth0 | True | fe80::6245:bdff:fecf:6ebf/64 | . | link | 60:45:bd:cf:6e:bf | ci-info: | lo | True | 127.0.0.1 | 255.0.0.0 | host | . | ci-info: | lo | True | ::1/128 | . | host | . | ci-info: +--------+------+------------------------------+---------------+--------+-------------------+ ci-info: +++++++++++++++++++++++++++++++Route IPv4 info+++++++++++++++++++++++++++++++ ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: | Route | Destination | Gateway | Genmask | Interface | Flags | ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: | 0 | 0.0.0.0 | 10.48.0.1 | 0.0.0.0 | eth0 | UG | ci-info: | 1 | 10.48.0.0 | 0.0.0.0 | 255.255.255.0 | eth0 | U | ci-info: | 2 | 168.63.129.16 | 10.48.0.1 | 255.255.255.255 | eth0 | UGH | ci-info: | 3 | 169.254.169.254 | 10.48.0.1 | 255.255.255.255 | eth0 | UGH | ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: +++++++++++++++++++Route IPv6 info+++++++++++++++++++ ci-info: +-------+-------------+---------+-----------+-------+ ci-info: | Route | Destination | Gateway | Interface | Flags | ci-info: +-------+-------------+---------+-----------+-------+ ci-info: | 1 | fe80::/64 | :: | eth0 | U | ci-info: | 3 | local | :: | eth0 | U | ci-info: | 4 | multicast | :: | eth0 | U | ci-info: +-------+-------------+---------+-----------+-------+ Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:config' at Tue, 27 Jun 2023 12:45:06 +0000. Up 17.04 seconds. Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:final' at Tue, 27 Jun 2023 12:45:07 +0000. Up 18.26 seconds. System setup through cloud-init is finished. Configuration took 18.57 seconds ```

edwardchalstrey1 commented 1 year ago

^ Looks like it may be related to transformers after all:

Vulnerability found in transformers version 4.19.2

jemrobinson commented 1 year ago

It's not that. It's the exception that's thrown that the top of your log file extract

Error message: OSError: libcufft.so.10: cannot open shared object file: No such file or directory

``` Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 168, in _load_global_deps ctypes.CDLL(lib_path, mode=ctypes.RTLD_GLOBAL) File "/opt/pyenv/versions/3.9.17/lib/python3.9/ctypes/__init__.py", line 374, in __init__ self._handle = _dlopen(self._name, mode) OSError: libcufft.so.10: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 188, in _run_module_as_main mod_name, mod_spec, code = _get_module_details(mod_name, _Error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 147, in _get_module_details return _get_module_details(pkg_main_name, error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 111, in _get_module_details __import__(pkg_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/__init__.py", line 6, in from .errors import setup_default_warnings File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/errors.py", line 2, in from .compat import Literal File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/compat.py", line 3, in from thinc.util import copy_array File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/__init__.py", line 5, in from .config import registry File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/config.py", line 4, in from .types import Decorator File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/types.py", line 8, in from .compat import has_cupy, cupy File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/compat.py", line 30, in import torch.utils.dlpack File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 228, in _load_global_deps() File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 189, in _load_global_deps _preload_cuda_deps(lib_folder, lib_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 154, in _preload_cuda_deps raise ValueError(f"{lib_name} not found in the system path {sys.path}") ValueError: libcublas.so.*[0-9] not found in the system path ['/', '/opt/pyenv/versions/3.9.17/lib/python39.zip', '/opt/pyenv/versions/3.9.17/lib/python3.9', '/opt/pyenv/versions/3.9.17/lib/python3.9/lib-dynload', '/root/.local/lib/python3.9/site-packages', '/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages'] Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 168, in _load_global_deps ctypes.CDLL(lib_path, mode=ctypes.RTLD_GLOBAL) File "/opt/pyenv/versions/3.9.17/lib/python3.9/ctypes/__init__.py", line 374, in __init__ self._handle = _dlopen(self._name, mode) OSError: libcufft.so.10: cannot open shared object file: No such file or directory ```

This is related to torch. Recently torch separated its GPU-enabled package from the CPU-enabled one. As we want one build to work on both CPU and GPU VMs the best solution is to drop torch from the list of required Python packages. Do you know where to make this change @edwardchalstrey1 ?

edwardchalstrey1 commented 1 year ago

Ok, so remove torch from here: https://github.com/alan-turing-institute/data-safe-haven/blob/develop/deployment/secure_research_desktop/packages/packages-python.yaml

Is torchvision totally separate or should that be dropped too?

jemrobinson commented 1 year ago

Yes, you'll need to drop both

edwardchalstrey1 commented 1 year ago

Building the candidate VM again

``` [4b34888f] + QOI v1.0.0 [1fd47b50] + QuadGK v2.8.2 [94ee1d12] + Quaternions v0.7.4 [74087812] + Random123 v1.6.1 [e6cf234a] + RandomNumbers v1.5.3 [b3c3ace0] + RangeArrays v0.3.2 [c84ed2f1] + Ratios v0.4.5 [c1ae055f] + RealDot v0.1.0 [3cdcf5f2] + RecipesBase v1.3.4 [01d81517] + RecipesPipeline v0.6.12 [731186ca] + RecursiveArrayTools v2.38.5 [f2c3362d] + RecursiveFactorization v0.2.18 [189a3867] + Reexport v1.2.2 [dee08c22] + RegionTrees v0.3.2 [05181044] + RelocatableFolders v1.0.0 [ae029012] + Requires v1.3.0 [ae5879a3] + ResettableStacks v1.1.1 [79098fc4] + Rmath v0.7.1 [f2b01f46] + Roots v2.0.17 [6038ab10] + Rotations v1.5.1 [7e49a35a] + RuntimeGeneratedFunctions v0.5.11 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.39 [0bca4576] + SciMLBase v1.93.0 [e9a6253c] + SciMLNLSolve v0.1.8 [c0aeaf25] + SciMLOperators v0.3.2 [3646fa90] + ScikitLearn v0.7.0 [6e75b9c4] + ScikitLearnBase v0.5.0 [6c6a2e73] + Scratch v1.2.0 [91c51154] + SentinelArrays v1.4.0 [efcf1570] + Setfield v1.1.1 [1277b4bf] + ShiftedArrays v2.0.0 [992d4aef] + Showoff v1.0.3 [777ac1f9] + SimpleBufferStream v1.1.0 [727e6d20] + SimpleNonlinearSolve v0.1.16 [699a6c99] + SimpleTraits v0.9.4 [ce78b400] + SimpleUnPack v1.1.0 [47aef6b3] + SimpleWeightedGraphs v1.4.0 [45858cf5] + Sixel v0.1.2 [66db9d55] + SnoopPrecompile v1.0.3 [b85f4697] + SoftGlobalScope v1.1.0 [a2af1166] + SortingAlgorithms v1.1.1 [47a9eef4] + SparseDiffTools v2.4.1 [e56a9233] + Sparspak v0.3.9 [276daf66] + SpecialFunctions v2.3.0 [cae243ae] + StackViews v0.1.1 [aedffcd0] + Static v0.8.7 [0d7ed370] + StaticArrayInterface v1.4.0 [90137ffa] + StaticArrays v1.5.26 [1e83bf80] + StaticArraysCore v1.4.0 [82ae8749] + StatsAPI v1.6.0 ⌅ [2913bbd2] + StatsBase v0.33.21 [4c63d2b9] + StatsFuns v1.3.0 [3eaba693] + StatsModels v0.7.2 [9672c7b4] + SteadyStateDiffEq v1.15.0 [789caeaf] + StochasticDiffEq v6.61.1 [7792a7ef] + StrideArraysCore v0.4.15 [892a3eda] + StringManipulation v0.3.0 [09ab397b] + StructArrays v0.6.15 [c3572dad] + Sundials v4.19.0 [2efcf032] + SymbolicIndexingInterface v0.2.2 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.10.1 [62fd8b95] + TensorCore v0.1.1 [b718987f] + TextWrap v1.0.1 [8290d209] + ThreadingUtilities v0.5.1 [731e570b] + TiffImages v0.6.4 ⌅ [06e1c1a7] + TiledIteration v0.3.1 [3bb67fe8] + TranscodingStreams v0.9.13 [a2a6695c] + TreeViews v0.3.0 [d5829a12] + TriangularSolve v0.1.19 [410a4b4d] + Tricks v0.1.7 [781d530d] + TruncatedStacktraces v1.3.0 [5c2747f8] + URIs v1.4.2 [3a884ed6] + UnPack v1.0.2 [1cfade01] + UnicodeFun v0.4.1 [1986cc42] + Unitful v1.14.0 [45397f5d] + UnitfulLatexify v1.6.3 [41fe7b60] + Unzip v0.2.0 [3d5dd08c] + VectorizationBase v0.21.64 [81def892] + VersionParsing v1.3.0 [19fa3120] + VertexSafeGraphs v0.2.0 [ea10d353] + WeakRefStrings v1.4.2 [0f1e0344] + WebIO v0.8.21 [104b5d7c] + WebSockets v1.6.0 [cc8bc4a8] + Widgets v0.6.6 ⌅ [1b915085] + WinReg v0.3.1 [efce3f68] + WoodburyMatrices v0.5.5 [76eceee3] + WorkerUtilities v1.6.1 [c2297ded] + ZMQ v1.2.2 [e88e6eb3] + Zygote v0.6.62 [700de1a5] + ZygoteRules v0.2.3 [6e34b625] + Bzip2_jll v1.0.8+0 [83423d85] + Cairo_jll v1.16.1+1 [2e619515] + Expat_jll v2.5.0+0 [b22a6f82] + FFMPEG_jll v4.4.2+2 [f5851436] + FFTW_jll v3.3.10+0 [a3f928ae] + Fontconfig_jll v2.13.93+0 [d7e528f0] + FreeType2_jll v2.10.4+0 [559328eb] + FriBidi_jll v1.0.10+0 [0656b61e] + GLFW_jll v3.3.8+0 [d2c73de3] + GR_jll v0.72.7+0 [78b55507] + Gettext_jll v0.21.0+0 [61579ee1] + Ghostscript_jll v9.55.0+4 [7746bdde] + Glib_jll v2.74.0+2 [3b182d85] + Graphite2_jll v1.3.14+0 [2e76f6c2] + HarfBuzz_jll v2.8.1+1 ⌅ [c73af94c] + ImageMagick_jll v6.9.12+4 [905a6f67] + Imath_jll v3.1.7+0 [1d5cc7b8] + IntelOpenMP_jll v2023.1.0+0 [aacddb02] + JpegTurbo_jll v2.1.91+0 [c1c5ebd0] + LAME_jll v3.100.1+0 [88015f11] + LERC_jll v3.0.0+1 [dad2f222] + LLVMExtra_jll v0.0.22+0 [1d63c593] + LLVMOpenMP_jll v15.0.4+0 [dd4b983a] + LZO_jll v2.10.1+0 ⌅ [e9f186c6] + Libffi_jll v3.2.2+1 [d4300ac3] + Libgcrypt_jll v1.8.7+0 [7e76a0d4] + Libglvnd_jll v1.6.0+0 [7add5ba3] + Libgpg_error_jll v1.42.0+0 [94ce4f54] + Libiconv_jll v1.16.1+2 [4b2f31a3] + Libmount_jll v2.35.0+0 ⌅ [89763e89] + Libtiff_jll v4.4.0+0 [38a345b3] + Libuuid_jll v2.36.0+0 [d3a379c0] + LittleCMS_jll v2.12.0+0 [856f044c] + MKL_jll v2023.1.0+0 [4c82536e] + Nettle_jll v3.7.2+0 [e7412a2a] + Ogg_jll v1.3.5+1 [18a262bb] + OpenEXR_jll v3.1.4+0 [643b3616] + OpenJpeg_jll v2.4.0+0 ⌅ [458c3c95] + OpenSSL_jll v1.1.21+0 [efe28fd5] + OpenSpecFun_jll v0.5.5+0 [91d4177d] + Opus_jll v1.3.2+0 [30392449] + Pixman_jll v0.42.2+0 [ea2cea3b] + Qt5Base_jll v5.15.3+2 [f50d1b31] + Rmath_jll v0.4.0+0 [fb77eaff] + Sundials_jll v5.2.1+0 [a2964d1f] + Wayland_jll v1.21.0+0 [2381bf8a] + Wayland_protocols_jll v1.25.0+0 [02c8fc9c] + XML2_jll v2.10.3+0 [aed1982a] + XSLT_jll v1.1.34+0 [4f6342f7] + Xorg_libX11_jll v1.6.9+4 [0c0b7dd1] + Xorg_libXau_jll v1.0.9+4 [935fb764] + Xorg_libXcursor_jll v1.2.0+4 [a3789734] + Xorg_libXdmcp_jll v1.1.3+4 [1082639a] + Xorg_libXext_jll v1.3.4+4 [d091e8ba] + Xorg_libXfixes_jll v5.0.3+4 [a51aa0fd] + Xorg_libXi_jll v1.7.10+4 [d1454406] + Xorg_libXinerama_jll v1.1.4+4 [ec84b674] + Xorg_libXrandr_jll v1.5.2+4 [ea2f1a96] + Xorg_libXrender_jll v0.9.10+4 [14d82f49] + Xorg_libpthread_stubs_jll v0.1.0+3 [c7cfdc94] + Xorg_libxcb_jll v1.13.0+3 [cc61e674] + Xorg_libxkbfile_jll v1.1.0+4 [12413925] + Xorg_xcb_util_image_jll v0.4.0+1 [2def613f] + Xorg_xcb_util_jll v0.4.0+1 [975044d2] + Xorg_xcb_util_keysyms_jll v0.4.0+1 [0d47668e] + Xorg_xcb_util_renderutil_jll v0.3.9+1 [c22f9ab0] + Xorg_xcb_util_wm_jll v0.4.1+1 [35661453] + Xorg_xkbcomp_jll v1.4.2+4 [33bec58e] + Xorg_xkeyboard_config_jll v2.27.0+4 [c5fb5394] + Xorg_xtrans_jll v1.4.0+3 [8f1865be] + ZeroMQ_jll v4.3.4+0 [3161d3a3] + Zstd_jll v1.5.5+0 ⌅ [214eeab7] + fzf_jll v0.29.0+0 [a4ae2306] + libaom_jll v3.4.0+0 [0ac62f75] + libass_jll v0.15.1+0 [f638f0a6] + libfdk_aac_jll v2.0.2+0 [b53b4c65] + libpng_jll v1.6.38+0 [075b6546] + libsixel_jll v1.10.3+0 [a9144af2] + libsodium_jll v1.0.20+0 [f27f6e37] + libvorbis_jll v1.3.7+1 [1270edf5] + x264_jll v2021.5.5+0 [dfaa095f] + x265_jll v3.5.0+0 [d8fb68d0] + xkbcommon_jll v1.4.1+0 [0dad84c5] + ArgTools v1.1.1 [56f22d72] + Artifacts [2a0f44e3] + Base64 [ade2ca70] + Dates [8ba89e20] + Distributed [f43a241f] + Downloads v1.6.0 [7b1f6079] + FileWatching [9fa8497b] + Future [b77e0a4c] + InteractiveUtils [4af54fe1] + LazyArtifacts [b27032c2] + LibCURL v0.6.3 [76f85450] + LibGit2 [8f399da3] + Libdl [37e2e46d] + LinearAlgebra [56ddb016] + Logging [d6f4376e] + Markdown [a63ad114] + Mmap [ca575930] + NetworkOptions v1.2.0 [44cfe95a] + Pkg v1.9.0 [de0858da] + Printf [9abbd945] + Profile [3fa0cd96] + REPL [9a3f8284] + Random [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization [1a1011a3] + SharedArrays [6462fe0b] + Sockets [2f01184e] + SparseArrays [10745b16] + Statistics v1.9.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test [cf7118a7] + UUIDs [4ec0a83e] + Unicode [e66e0078] + CompilerSupportLibraries_jll v1.0.2+0 [781609d7] + GMP_jll v6.2.1+2 [deac9b47] + LibCURL_jll v7.84.0+0 [29816b5a] + LibSSH2_jll v1.10.2+0 [c8ffd9c3] + MbedTLS_jll v2.28.2+0 [14a3606d] + MozillaCACerts_jll v2022.10.11 [4536629a] + OpenBLAS_jll v0.3.21+4 [05823500] + OpenLibm_jll v0.8.1+0 [efcefdf7] + PCRE2_jll v10.42.0+0 [bea87d4a] + SuiteSparse_jll v5.10.1+6 [83775a58] + Zlib_jll v1.2.13+0 [8e850b90] + libblastrampoline_jll v5.8.0+0 [8e850ede] + nghttp2_jll v1.48.0+0 [3f19e933] + p7zip_jll v17.4.0+0 Info Packages marked with ⌃ and ⌅ have new versions available, but those with ⌅ are restricted by compatibility constraints from upgrading. To see why use `status --outdated -m` Building WebIO ───────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/0eef0765186f7452e52236fa42ca8c9b3c11c6e3/build.log` Building Conda ───────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/915ebe6f0e7302693bdd8eac985797dba1d25662/build.log` Building IJulia ──────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/47ac8cc196b81001a711f4b2c12c97372338f00c/build.log` Building PyCall ──────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/f33ca06633c2cf08753d235208fcb46a052072ea/build.log` Building Knockout ────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/91835de56d816864f1c38fb5e3fad6eb1e741271/build.log` Building InteractBase → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/aa5daeff326db0a9126a225b58ca04ae12f57259/build.log` Building Interact ────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/c5091992248c7134af7c90554305c600d5d9012b/build.log` Precompiling project... ✓ SimpleUnPack ✓ IteratorInterfaceExtensions ✓ LaTeXStrings ✓ Tricks ✓ StatsAPI ✓ ADTypes ✓ Contour ✓ FunctionWrappers ✓ Calculus ✓ Pipe ✓ OpenLibm_jll ✓ SoftGlobalScope ✓ CompilerSupportLibraries_jll ✓ Measures ✓ WinReg ✓ Grisu ✓ Compat ✓ DataValueInterfaces ✓ TextWrap ✓ RealDot ✓ Observables ✓ SimpleBufferStream ✓ DocStringExtensions ✓ CustomUnitRanges ✓ URIs ✓ AbstractTrees ✓ ProgressMeter ✓ CpuId ✓ DelimitedFiles ✓ InvertedIndices ✓ ExprTools ✓ UnPack ✓ ConcurrentUtilities ✓ UnicodeFun ✓ CommonSolve ✓ Statistics ✓ SuiteSparse_jll ✓ ShiftedArrays ✓ StringManipulation ✓ IterTools ✓ PoissonRandom ✓ Pidfile ✓ LazyModules ✓ DataAPI ✓ Formatting ✓ MappedArrays ✓ RangeArrays ✓ IrrationalConstants ✓ AbstractFFTs ✓ IndirectArrays ✓ Combinatorics ✓ WorkerUtilities ✓ FastLapackInterface ✓ VersionParsing ✓ Crayons ✓ ArgCheck ✓ ManualMemory ✓ BufferedStreams ✓ EnumX ✓ OrderedCollections ✓ Requires ✓ Reexport ✓ GMP_jll ✓ MbedTLS_jll ✓ TreeViews ✓ IfElse ✓ Inflate ✓ FastClosures ✓ ConstructionBase ✓ Scratch ✓ BitFlags ✓ TranscodingStreams ✓ MuladdMacro ✓ StaticArraysCore ✓ SuiteSparse ✓ TensorCore ✓ PositiveFactorizations ✓ Krylov ✓ CodeTracking ✓ CEnum ✓ WoodburyMatrices ✓ PkgVersion ✓ SIMDTypes ✓ Zlib_jll ✓ Unzip ✓ Preferences ✓ GenericSchur ✓ PCRE2_jll ✓ ExceptionUnwrapping ✓ LoggingExtras ✓ SentinelArrays ✓ ComputationalResources ✓ TableTraits ✓ FunctionalCollections ✓ FunctionWrappersWrappers ✓ NaNMath ✓ Showoff ✓ Compat → CompatLinearAlgebraExt ✓ Quaternions ✓ SymbolicIndexingInterface ✓ RuntimeGeneratedFunctions ✓ ArgParse ✓ IntervalSets ✓ Distances ✓ ScikitLearnBase ✓ MacroTools ✓ PooledArrays ✓ ChainRulesCore ✓ FilePathsBase ✓ Missings ✓ KLU ✓ FillArrays ✓ LogExpFunctions ✓ Parameters ✓ Adapt ✓ Ratios ✓ ThreadingUtilities ✓ LibSSH2_jll ✓ RandomNumbers ✓ RelocatableFolders ✓ DiffResults ✓ MbedTLS ✓ Static ✓ PDMats ✓ FixedPointNumbers ✓ CodecZlib ✓ AxisAlgorithms ✓ PrecompileTools ✓ SnoopPrecompile ✓ JLLWrappers ✓ Tables ✓ ConstructionBase → ConstructionBaseIntervalSetsExt ✓ AxisArrays ✓ CommonSubexpressions ✓ DecisionTree ✓ DataStructures ✓ SimpleTraits ✓ FileIO ✓ IRTools ✓ TruncatedStacktraces ✓ Lazy ✓ Highlights ✓ Random123 ✓ BitTwiddlingConvenienceFunctions ✓ AbstractFFTs → AbstractFFTsChainRulesCoreExt ✓ ZygoteRules ✓ Latexify ✓ Ratios → RatiosFixedPointNumbersExt ✓ LogExpFunctions → LogExpFunctionsChainRulesCoreExt ✓ StaticArrays ✓ RecipesBase ✓ CPUSummary ✓ OpenSSL_jll ✓ ArrayInterfaceCore ✓ libsodium_jll ✓ Libffi_jll ✓ ColorTypes ✓ Wayland_protocols_jll ✓ OpenSpecFun_jll ✓ Libuuid_jll ✓ ArrayLayouts ✓ LLVMOpenMP_jll ✓ Imath_jll ✓ ProtoBuf ✓ fzf_jll ✓ IntelOpenMP_jll ✓ JpegTurbo_jll ✓ Ogg_jll ✓ x265_jll ✓ x264_jll ✓ Sundials_jll ✓ FriBidi_jll ✓ Graphite2_jll ✓ Libiconv_jll ✓ Xorg_libXau_jll ✓ libpng_jll ✓ Ghostscript_jll ✓ Xorg_libXdmcp_jll ✓ LAME_jll ✓ libaom_jll ✓ Zstd_jll ✓ LZO_jll ✓ Expat_jll ✓ LLVMExtra_jll ✓ Xorg_xtrans_jll ✓ Opus_jll ✓ Libmount_jll ✓ Bzip2_jll ✓ LERC_jll ✓ Rmath_jll ✓ libfdk_aac_jll ✓ Libgpg_error_jll ✓ FFTW_jll ✓ Xorg_libpthread_stubs_jll ✓ Nettle_jll ✓ SortingAlgorithms ✓ HostCPUFeatures ✓ QuadGK ✓ JavaCall ✓ ArnoldiMethod ✓ CoordinateTransformations ✓ ResettableStacks ✓ NearestNeighbors ✓ Rotations ✓ RegionTrees ✓ Adapt → AdaptStaticArraysExt ✓ JuliaInterpreter ✓ PolyesterWeave ✓ ConstructionBase → ConstructionBaseStaticArraysExt ✓ ZeroMQ_jll ✓ IntegralArrays ✓ QOI ✓ Pixman_jll ✓ OpenEXR_jll ✓ OpenSSL ✓ JLFzf ✓ MKL_jll ✓ SpecialFunctions ✓ libvorbis_jll ✓ XML2_jll ✓ libsixel_jll ✓ FreeType2_jll ✓ Libtiff_jll ✓ Rmath ✓ Libgcrypt_jll ✓ Colors ✓ Nettle ✓ JDBC ✓ StatsBase ✓ OffsetArrays ✓ LLVM ✓ GPUArraysCore ✓ ArrayInterface ✓ Debugger ✓ Graphs ✓ PrettyTables ✓ LightGraphs ✓ Setfield ✓ ZMQ ✓ SpecialFunctions → SpecialFunctionsChainRulesCoreExt ✓ DualNumbers ✓ LevyArea ✓ DiffRules ✓ HTTP ✓ LightXML ✓ Gettext_jll ✓ Wayland_jll ✓ Fontconfig_jll ✓ LittleCMS_jll ✓ XSLT_jll ✓ Graphics ✓ Widgets ✓ ColorVectorSpace ✓ OpenEXR ✓ MLBase ✓ PaddedViews ✓ CatIndices ✓ TiledIteration ✓ StackViews ✓ Clustering ✓ Sparspak ✓ StructArrays ✓ Interpolations ✓ Parsers ✓ GPUArrays ✓ ArrayInterface → ArrayInterfaceGPUArraysCoreExt ✓ ArrayInterface → ArrayInterfaceStaticArraysCoreExt ✓ Polynomials ✓ JLD2 ✓ SimpleWeightedGraphs ✓ VertexSafeGraphs ✓ HypergeometricFunctions ✓ WebSockets ✓ Glib_jll ✓ OpenJpeg_jll ✓ Xorg_libxcb_jll ✓ FFTW ✓ Roots ✓ MosaicViews ✓ InlineStrings ✓ ForwardDiff ✓ JSON ✓ Polynomials → PolynomialsChainRulesCoreExt ✓ ImageMagick_jll ✓ MetaGraphs ✓ Xorg_xcb_util_jll ✓ StatsFuns ✓ Xorg_libX11_jll ✓ FFTViews ✓ ChainRules ✓ WeakRefStrings ✓ ColorSchemes ✓ ForwardDiff → ForwardDiffStaticArraysExt ✓ Roots → RootsForwardDiffExt ✓ BenchmarkTools ✓ AssetRegistry ✓ Conda ✓ Xorg_xcb_util_keysyms_jll ✓ Xorg_xcb_util_renderutil_jll ✓ Xorg_xcb_util_image_jll ✓ Xorg_xcb_util_wm_jll ✓ StatsFuns → StatsFunsChainRulesCoreExt ✓ StatsModels ✓ Xorg_libXrender_jll ✓ DSP ✓ Xorg_libXext_jll ✓ Xorg_libXfixes_jll ✓ Xorg_libxkbfile_jll ✓ Distributions ✓ PreallocationTools ✓ BandedMatrices ✓ WebIO ✓ Unitful ✓ IJulia ✓ Xorg_libXinerama_jll ✓ Libglvnd_jll ✓ Xorg_libXrandr_jll ✓ PlotUtils ✓ Cairo_jll ✓ Xorg_libXcursor_jll ✓ Xorg_libXi_jll ✓ Xorg_xkbcomp_jll ✓ Distributions → DistributionsChainRulesCoreExt ✓ ExponentialUtilities ✓ ArrayInterface → ArrayInterfaceBandedMatricesExt ✓ CSSUtil ✓ JSExpr ✓ UnitfulLatexify ✓ HarfBuzz_jll ✓ GLFW_jll ✓ Xorg_xkeyboard_config_jll ✓ PlotThemes ✓ KernelDensity ✓ HypothesisTests ✓ RecipesPipeline ✓ CSV ✓ FiniteDiff ✓ StaticArrayInterface ✓ RecursiveArrayTools ✓ GLM ✓ libass_jll ✓ PyCall ✓ xkbcommon_jll ✓ SciMLOperators ✓ FiniteDiff → FiniteDiffStaticArraysExt ✓ StaticArrayInterface → StaticArrayInterfaceOffsetArraysExt ✓ NLSolversBase ✓ Knockout ✓ CloseOpenIntervals ✓ StaticArrayInterface → StaticArrayInterfaceStaticArraysExt ✓ LayoutPointers ✓ FFMPEG_jll ✓ FiniteDiff → FiniteDiffBandedMatricesExt ✓ Qt5Base_jll ✓ SparseDiffTools ✓ LineSearches ✓ TiffImages ✓ ImageCore ✓ PyPlot ✓ FFMPEG ✓ StrideArraysCore ✓ GR_jll ✓ InteractBase ✓ NLsolve ✓ SciMLBase ✓ ImageMorphology ✓ Optim ✓ ImageBase ✓ Sixel ✓ Polyester ✓ Interact ✓ JpegTurbo ✓ ImageDistances ✓ ImageMagick ✓ GR ✓ ImageAxes ✓ ImageShow ✓ PNGFiles ✓ FastBroadcast ✓ ImageTransformations ✓ ImageMetadata ✓ Netpbm ✓ DiffEqBase ✓ ImageIO ✓ ImageContrastAdjustment ✓ VectorizationBase ✓ DiffEqBase → DiffEqBaseDistributionsExt ✓ DiffEqCallbacks ✓ DiffEqBase → DiffEqBaseUnitfulExt ✓ SLEEFPirates ✓ SciMLNLSolve ✓ JumpProcesses ✓ DiffEqNoiseProcess ✓ DataFrames ✓ Zygote ✓ SimpleNonlinearSolve ✓ Latexify → DataFramesExt ✓ Zygote → ZygoteColorsExt ✓ Zygote → ZygoteDistancesExt ✓ RecursiveArrayTools → RecursiveArrayToolsZygoteExt ✓ SparseDiffTools → SparseDiffToolsZygoteExt ✓ ScikitLearn ✓ DiffEqBase → DiffEqBaseZygoteExt ✓ SteadyStateDiffEq ✓ Sundials ✓ BoundaryValueDiffEq ✓ LoopVectorization ✓ LoopVectorization → SpecialFunctionsExt ✓ LoopVectorization → ForwardDiffExt ✓ TriangularSolve ✓ RecursiveFactorization ✓ ImageFiltering ✓ ImageSegmentation ✓ LinearSolve ✓ ImageQualityIndexes ✓ Images ✓ Plots ✓ Plots → IJuliaExt ✓ Plots → FileIOExt ✓ Plots → UnitfulExt ✓ NonlinearSolve ✓ OrdinaryDiffEq ✓ DelayDiffEq ✓ StochasticDiffEq ✓ DifferentialEquations 425 dependencies successfully precompiled in 557 seconds Building Conda → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/915ebe6f0e7302693bdd8eac985797dba1d25662/build.log` Building Conda ─→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/915ebe6f0e7302693bdd8eac985797dba1d25662/build.log` Building IJulia → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/47ac8cc196b81001a711f4b2c12c97372338f00c/build.log` Building WebIO ───────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/0eef0765186f7452e52236fa42ca8c9b3c11c6e3/build.log` Building Knockout ────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/91835de56d816864f1c38fb5e3fad6eb1e741271/build.log` Building InteractBase → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/aa5daeff326db0a9126a225b58ca04ae12f57259/build.log` Building Interact ────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/c5091992248c7134af7c90554305c600d5d9012b/build.log` Building Conda ─→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/915ebe6f0e7302693bdd8eac985797dba1d25662/build.log` Building PyCall → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/f33ca06633c2cf08753d235208fcb46a052072ea/build.log` Building Conda ─→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/915ebe6f0e7302693bdd8eac985797dba1d25662/build.log` Building PyCall → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/f33ca06633c2cf08753d235208fcb46a052072ea/build.log` Building Conda ─→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/915ebe6f0e7302693bdd8eac985797dba1d25662/build.log` Building PyCall → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/f33ca06633c2cf08753d235208fcb46a052072ea/build.log` ... successfully installed Julia [InstallKernelSpec] Installed kernelspec julia-1.9 in /usr/local/share/jupyter/kernels/julia-1.9 >=== 1687879765 Installing Python (3.9.17) and packages ===< Downloading Python-3.9.17.tar.xz... -> https://www.python.org/ftp/python/3.9.17/Python-3.9.17.tar.xz Installing Python-3.9.17... 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Downloading cffi-1.15.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (441 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 441.2/441.2 kB 24.6 MB/s eta 0:00:00 Collecting pycparser Downloading pycparser-2.21-py2.py3-none-any.whl (118 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 118.7/118.7 kB 9.9 MB/s eta 0:00:00 Installing collected packages: webencodings, trove-classifiers, ptyprocess, msgpack, lockfile, distlib, zipp, urllib3, tomlkit, tomli, six, shellingham, rapidfuzz, pyrsistent, pycparser, poetry-core, platformdirs, pkginfo, pip, pexpect, packaging, more-itertools, jeepney, installer, idna, filelock, crashtest, charset-normalizer, certifi, attrs, virtualenv, requests, pyproject-hooks, jsonschema, jaraco.classes, importlib-metadata, html5lib, dulwich, cleo, cffi, requests-toolbelt, cryptography, cachecontrol, build, SecretStorage, keyring, poetry-plugin-export, poetry Attempting uninstall: pip Found existing installation: pip 23.0.1 Uninstalling pip-23.0.1: Successfully uninstalled pip-23.0.1 Successfully installed SecretStorage-3.3.3 attrs-23.1.0 build-0.10.0 cachecontrol-0.12.14 certifi-2023.5.7 cffi-1.15.1 charset-normalizer-3.1.0 cleo-2.0.1 crashtest-0.4.1 cryptography-41.0.1 distlib-0.3.6 dulwich-0.21.5 filelock-3.12.2 html5lib-1.1 idna-3.4 importlib-metadata-6.7.0 installer-0.7.0 jaraco.classes-3.2.3 jeepney-0.8.0 jsonschema-4.17.3 keyring-23.13.1 lockfile-0.12.2 more-itertools-9.1.0 msgpack-1.0.5 packaging-23.1 pexpect-4.8.0 pip-23.1.2 pkginfo-1.9.6 platformdirs-3.8.0 poetry-1.5.1 poetry-core-1.6.1 poetry-plugin-export-1.4.0 ptyprocess-0.7.0 pycparser-2.21 pyproject-hooks-1.0.0 pyrsistent-0.19.3 rapidfuzz-2.15.1 requests-2.31.0 requests-toolbelt-1.0.0 shellingham-1.5.0.post1 six-1.16.0 tomli-2.0.1 tomlkit-0.11.8 trove-classifiers-2023.5.24 urllib3-1.26.16 virtualenv-20.23.1 webencodings-0.5.1 zipp-3.15.0 WARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv Installing packages with poetry... Skipping virtualenv creation, as specified in config file. Using version ^0.15.1 for arviz Using version ^4.12.2 for beautifulsoup4 Using version ^23.3.0 for black Using version ^0.29.35 for cython Using version ^2.11.0 for dash Using version ^2023.6.1 for dask Using version ^0.12.2 for flair Using version ^6.0.0 for flake8 Using version ^0.14.0 for folium Using version ^4.3.1 for gensim Using version ^0.13.2 for geopandas Using version ^0.26.2 for gym Using version ^1.1 for html5lib Using version ^6.23.3 for ipykernel Using version ^2.12.0 for keras Using version ^3.3.5 for lightgbm Using version ^4.9.2 for lxml Using version ^3.7.1 for matplotlib Using version ^3.8.1 for nltk Using version ^0.57.1 for numba Using version ^2.0.2 for pandas Using version ^0.7.3 for pandasql Using version ^0.3.0 for pathos Using version ^1.29.8 for pg8000 Using version ^9.5.0 for pillow Using version ^5.15.0 for plotly Using version ^1.1.4 for prophet Using version ^2.9.6 for psycopg2 Using version ^1.4.2 for pydot Using version ^2.1.4 for pygrib Using version ^2.17.4 for pylint Using version ^5.5.0 for pymc Using version ^4.0.39 for pyodbc Using version ^3.6.0 for pyproj Using version ^2.3.1 for pyshp Using version ^3.7.0 for pystan Using version ^7.4.0 for pytest Using version ^6.0 for pyyaml Using version ^2023.6.3 for regex Using version ^2.31.0 for requests Using version ^2.3.5 for safety Using version ^1.2.2 for scikit-learn Using version ^1.11.0 for scipy Using version ^0.12.2 for seaborn Using version ^0.1.2 for spacy-langdetect Using version ^3.5.3 for spacy Using version ^7.0.1 for sphinx Using version ^2.0.17 for sqlalchemy Using version ^1.12 for sympy Using version ^3.8.0 for tables Using version ^2.12.0 for tensorflow Using version ^8.1.10 for thinc Using version ^0.20.1 for tsfresh Using version ^1.9.2 for wordcloud Using version ^1.7.6 for xgboost Using version ^2.0.1 for xlrd Updating dependencies Resolving dependencies... Package operations: 270 installs, 13 updates, 0 removals • Installing frozenlist (1.3.3) • Installing multidict (6.0.4) • Installing multipledispatch (0.6.0) • Installing toolz (0.12.0) • Installing aiosignal (1.3.1) • Installing async-timeout (4.0.2) • Installing markupsafe (2.1.3) • Installing logical-unification (0.4.6) • Installing python-dateutil (2.8.2) • Installing numpy (1.23.5) • Installing pyasn1 (0.5.0) • Installing mpmath (1.3.0) • Installing pytz (2023.3) • Installing tzdata (2023.3) • Installing yarl (1.9.2) • Installing aiohttp (3.8.4) • Installing cachetools (5.3.1) • Installing catalogue (2.0.8) • Installing cons (0.4.6) • Installing dill (0.3.6) • Installing fsspec (2023.6.0) • Installing jinja2 (3.1.2) • Installing jmespath (1.0.1) • Installing locket (1.0.0) • Installing networkx (3.1) • Installing oauthlib (3.2.2) • Updating packaging (23.1 -> 23.0) • Installing pandas (2.0.2) • Installing pyasn1-modules (0.3.0) • Installing pyyaml (6.0) • Installing rsa (4.9) • Installing sympy (1.12) • Installing tqdm (4.65.0) • Installing typing-extensions (4.6.3) ChefBuildError Backend 'setuptools.build_meta:__legacy__' is not available. at /opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/poetry/installation/chef.py:147 in _prepare 143│ 144│ error = ChefBuildError("\n\n".join(message_parts)) 145│ 146│ if error is not None: → 147│ raise error from None 148│ 149│ return path 150│ 151│ def _prepare_sdist(self, archive: Path, destination: Path | None = None) -> Path: Note: This error originates from the build backend, and is likely not a problem with poetry but with cons (0.4.6) not supporting PEP 517 builds. You can verify this by running 'pip wheel --use-pep517 "cons (==0.4.6)"'. Could not install Python 3.9.17! Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:final' at Tue, 27 Jun 2023 14:34:15 +0000. Up 126.24 seconds. 2023-06-27 15:33:58,935 - cc_scripts_user.py[WARNING]: Failed to run module scripts-user (scripts in /var/lib/cloud/instance/scripts) 2023-06-27 15:33:58,935 - util.py[WARNING]: Running module scripts-user () failed System setup through cloud-init is finished. Configuration took 3709.62 seconds Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'init-local' at Tue, 27 Jun 2023 15:37:21 +0000. Up 7.87 seconds. Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'init' at Tue, 27 Jun 2023 15:37:24 +0000. Up 10.97 seconds. ci-info: +++++++++++++++++++++++++++++++++++++++Net device info+++++++++++++++++++++++++++++++++++++++ ci-info: +--------+------+------------------------------+---------------+--------+-------------------+ ci-info: | Device | Up | Address | Mask | Scope | Hw-Address | ci-info: +--------+------+------------------------------+---------------+--------+-------------------+ ci-info: | eth0 | True | 10.48.0.7 | 255.255.255.0 | global | 60:45:bd:d2:ab:e3 | ci-info: | eth0 | True | fe80::6245:bdff:fed2:abe3/64 | . | link | 60:45:bd:d2:ab:e3 | ci-info: | lo | True | 127.0.0.1 | 255.0.0.0 | host | . | ci-info: | lo | True | ::1/128 | . | host | . | ci-info: +--------+------+------------------------------+---------------+--------+-------------------+ ci-info: +++++++++++++++++++++++++++++++Route IPv4 info+++++++++++++++++++++++++++++++ ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: | Route | Destination | Gateway | Genmask | Interface | Flags | ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: | 0 | 0.0.0.0 | 10.48.0.1 | 0.0.0.0 | eth0 | UG | ci-info: | 1 | 10.48.0.0 | 0.0.0.0 | 255.255.255.0 | eth0 | U | ci-info: | 2 | 168.63.129.16 | 10.48.0.1 | 255.255.255.255 | eth0 | UGH | ci-info: | 3 | 169.254.169.254 | 10.48.0.1 | 255.255.255.255 | eth0 | UGH | ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: +++++++++++++++++++Route IPv6 info+++++++++++++++++++ ci-info: +-------+-------------+---------+-----------+-------+ ci-info: | Route | Destination | Gateway | Interface | Flags | ci-info: +-------+-------------+---------+-----------+-------+ ci-info: | 1 | fe80::/64 | :: | eth0 | U | ci-info: | 3 | local | :: | eth0 | U | ci-info: | 4 | multicast | :: | eth0 | U | ci-info: +-------+-------------+---------+-----------+-------+ Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:config' at Tue, 27 Jun 2023 15:37:34 +0000. Up 20.45 seconds. Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:final' at Tue, 27 Jun 2023 15:37:35 +0000. Up 21.26 seconds. System setup through cloud-init is finished. Configuration took 21.60 seconds ```

edwardchalstrey1 commented 1 year ago

^ this issue suggests we should downgrade poetry:

poetry>=1.3.0,<1.4.0

In our packages-pyton.yaml we currently have:

    poetry:  # also used by installation scripts
        "all": [">1.0.0"]  # increase solver flexibility

edwardchalstrey1 commented 1 year ago

Newest error - looks like we need to set the version of pystan (crashtest isn't something in our packages-pyton.yaml)

Poetry dependency issue

``` [50d2b5c4] + Lazy v0.15.1 [8cdb02fc] + LazyModules v0.3.1 [2d8b4e74] + LevyArea v1.0.0 [093fc24a] + LightGraphs v1.3.5 [9c8b4983] + LightXML v0.9.0 [d3d80556] + LineSearches v7.2.0 [7ed4a6bd] + LinearSolve v2.2.1 [2ab3a3ac] + LogExpFunctions v0.3.24 [e6f89c97] + LoggingExtras v1.0.0 [bdcacae8] + LoopVectorization v0.12.162 [f0e99cf1] + MLBase v0.9.1 [1914dd2f] + MacroTools v0.5.10 [d125e4d3] + ManualMemory v0.1.8 [dbb5928d] + MappedArrays v0.4.2 [739be429] + MbedTLS v1.1.7 [442fdcdd] + Measures v0.3.2 [626554b9] + MetaGraphs v0.7.2 [e1d29d7a] + Missings v1.1.0 [e94cdb99] + MosaicViews v0.3.4 [46d2c3a1] + MuladdMacro v0.2.4 [d41bc354] + NLSolversBase v7.8.3 [2774e3e8] + NLsolve v4.5.1 [77ba4419] + NaNMath v1.0.2 [b8a86587] + NearestNeighbors v0.4.13 [f09324ee] + Netpbm v1.1.0 [49dea1ee] + Nettle v1.0.0 [8913a72c] + NonlinearSolve v1.8.0 [510215fc] + Observables v0.5.4 [6fe1bfb0] + OffsetArrays v1.12.9 [52e1d378] + OpenEXR v0.3.2 [4d8831e6] + OpenSSL v1.4.1 [429524aa] + Optim v1.7.6 [bac558e1] + OrderedCollections v1.6.0 [1dea7af3] + OrdinaryDiffEq v6.53.2 [90014a1f] + PDMats v0.11.17 [f57f5aa1] + PNGFiles v0.3.17 [5432bcbf] + PaddedViews v0.5.12 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.7.1 [fa939f87] + Pidfile v1.3.0 [b98c9c47] + Pipe v1.3.0 [eebad327] + PkgVersion v0.3.2 [ccf2f8ad] + PlotThemes v3.1.0 [995b91a9] + PlotUtils v1.3.5 [91a5bcdd] + Plots v1.38.16 [e409e4f3] + PoissonRandom v0.4.4 [f517fe37] + Polyester v0.7.3 [1d0040c9] + PolyesterWeave v0.2.1 [f27b6e38] + Polynomials v3.2.13 [2dfb63ee] + PooledArrays v1.4.2 [85a6dd25] + PositiveFactorizations v0.2.4 [d236fae5] + PreallocationTools v0.4.12 [aea7be01] + PrecompileTools v1.1.2 [21216c6a] + Preferences v1.4.0 [08abe8d2] + PrettyTables v2.2.4 [92933f4c] + ProgressMeter v1.7.2 [3349acd9] + ProtoBuf v1.0.11 [438e738f] + PyCall v1.96.1 [d330b81b] + PyPlot v2.11.1 [4b34888f] + QOI v1.0.0 [1fd47b50] + QuadGK v2.8.2 [94ee1d12] + Quaternions v0.7.4 [74087812] + Random123 v1.6.1 [e6cf234a] + RandomNumbers v1.5.3 [b3c3ace0] + RangeArrays v0.3.2 [c84ed2f1] + Ratios v0.4.5 [c1ae055f] + RealDot v0.1.0 [3cdcf5f2] + RecipesBase v1.3.4 [01d81517] + RecipesPipeline v0.6.12 [731186ca] + RecursiveArrayTools v2.38.5 [f2c3362d] + RecursiveFactorization v0.2.18 [189a3867] + Reexport v1.2.2 [dee08c22] + RegionTrees v0.3.2 [05181044] + RelocatableFolders v1.0.0 [ae029012] + Requires v1.3.0 [ae5879a3] + ResettableStacks v1.1.1 [79098fc4] + Rmath v0.7.1 [f2b01f46] + Roots v2.0.17 [6038ab10] + Rotations v1.5.1 [7e49a35a] + RuntimeGeneratedFunctions v0.5.11 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.39 [0bca4576] + SciMLBase v1.93.0 [e9a6253c] + SciMLNLSolve v0.1.8 [c0aeaf25] + SciMLOperators v0.3.2 [3646fa90] + ScikitLearn v0.7.0 [6e75b9c4] + ScikitLearnBase v0.5.0 [6c6a2e73] + Scratch v1.2.0 [91c51154] + SentinelArrays v1.4.0 [efcf1570] + Setfield v1.1.1 [1277b4bf] + ShiftedArrays v2.0.0 [992d4aef] + Showoff v1.0.3 [777ac1f9] + SimpleBufferStream v1.1.0 [727e6d20] + SimpleNonlinearSolve v0.1.16 [699a6c99] + SimpleTraits v0.9.4 [ce78b400] + SimpleUnPack v1.1.0 [47aef6b3] + SimpleWeightedGraphs v1.4.0 [45858cf5] + Sixel v0.1.2 [66db9d55] + SnoopPrecompile v1.0.3 [b85f4697] + SoftGlobalScope v1.1.0 [a2af1166] + SortingAlgorithms v1.1.1 [47a9eef4] + SparseDiffTools v2.4.1 [e56a9233] + Sparspak v0.3.9 [276daf66] + SpecialFunctions v2.3.0 [cae243ae] + StackViews v0.1.1 [aedffcd0] + Static v0.8.7 [0d7ed370] + StaticArrayInterface v1.4.0 [90137ffa] + StaticArrays v1.5.26 [1e83bf80] + StaticArraysCore v1.4.0 [82ae8749] + StatsAPI v1.6.0 ⌅ [2913bbd2] + StatsBase v0.33.21 [4c63d2b9] + StatsFuns v1.3.0 [3eaba693] + StatsModels v0.7.2 [9672c7b4] + SteadyStateDiffEq v1.15.0 [789caeaf] + StochasticDiffEq v6.61.1 [7792a7ef] + StrideArraysCore v0.4.15 [892a3eda] + StringManipulation v0.3.0 [09ab397b] + StructArrays v0.6.15 [c3572dad] + Sundials v4.19.0 [2efcf032] + SymbolicIndexingInterface v0.2.2 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.10.1 [62fd8b95] + TensorCore v0.1.1 [b718987f] + TextWrap v1.0.1 [8290d209] + ThreadingUtilities v0.5.1 [731e570b] + TiffImages v0.6.4 ⌅ [06e1c1a7] + TiledIteration v0.3.1 [3bb67fe8] + TranscodingStreams v0.9.13 [a2a6695c] + TreeViews v0.3.0 [d5829a12] + TriangularSolve v0.1.19 [410a4b4d] + Tricks v0.1.7 [781d530d] + TruncatedStacktraces v1.3.0 [5c2747f8] + URIs v1.4.2 [3a884ed6] + UnPack v1.0.2 [1cfade01] + UnicodeFun v0.4.1 [1986cc42] + Unitful v1.14.0 [45397f5d] + UnitfulLatexify v1.6.3 [41fe7b60] + Unzip v0.2.0 [3d5dd08c] + VectorizationBase v0.21.64 [81def892] + VersionParsing v1.3.0 [19fa3120] + VertexSafeGraphs v0.2.0 [ea10d353] + WeakRefStrings v1.4.2 [0f1e0344] + WebIO v0.8.21 [104b5d7c] + WebSockets v1.6.0 [cc8bc4a8] + Widgets v0.6.6 ⌅ [1b915085] + WinReg v0.3.1 [efce3f68] + WoodburyMatrices v0.5.5 [76eceee3] + WorkerUtilities v1.6.1 [c2297ded] + ZMQ v1.2.2 [e88e6eb3] + Zygote v0.6.62 [700de1a5] + ZygoteRules v0.2.3 [6e34b625] + Bzip2_jll v1.0.8+0 [83423d85] + Cairo_jll v1.16.1+1 [2e619515] + Expat_jll v2.5.0+0 [b22a6f82] + FFMPEG_jll v4.4.2+2 [f5851436] + FFTW_jll v3.3.10+0 [a3f928ae] + Fontconfig_jll v2.13.93+0 [d7e528f0] + FreeType2_jll v2.10.4+0 [559328eb] + FriBidi_jll v1.0.10+0 [0656b61e] + GLFW_jll v3.3.8+0 [d2c73de3] + GR_jll v0.72.7+0 [78b55507] + Gettext_jll v0.21.0+0 [61579ee1] + Ghostscript_jll v9.55.0+4 [7746bdde] + Glib_jll v2.74.0+2 [3b182d85] + Graphite2_jll v1.3.14+0 [2e76f6c2] + HarfBuzz_jll v2.8.1+1 ⌅ [c73af94c] + ImageMagick_jll v6.9.12+4 [905a6f67] + Imath_jll v3.1.7+0 [1d5cc7b8] + IntelOpenMP_jll v2023.1.0+0 [aacddb02] + JpegTurbo_jll v2.1.91+0 [c1c5ebd0] + LAME_jll v3.100.1+0 [88015f11] + LERC_jll v3.0.0+1 [dad2f222] + LLVMExtra_jll v0.0.22+0 [1d63c593] + LLVMOpenMP_jll v15.0.4+0 [dd4b983a] + LZO_jll v2.10.1+0 ⌅ [e9f186c6] + Libffi_jll v3.2.2+1 [d4300ac3] + Libgcrypt_jll v1.8.7+0 [7e76a0d4] + Libglvnd_jll v1.6.0+0 [7add5ba3] + Libgpg_error_jll v1.42.0+0 [94ce4f54] + Libiconv_jll v1.16.1+2 [4b2f31a3] + Libmount_jll v2.35.0+0 ⌅ [89763e89] + Libtiff_jll v4.4.0+0 [38a345b3] + Libuuid_jll v2.36.0+0 [d3a379c0] + LittleCMS_jll v2.12.0+0 [856f044c] + MKL_jll v2023.1.0+0 [4c82536e] + Nettle_jll v3.7.2+0 [e7412a2a] + Ogg_jll v1.3.5+1 [18a262bb] + OpenEXR_jll v3.1.4+0 [643b3616] + OpenJpeg_jll v2.4.0+0 ⌅ [458c3c95] + OpenSSL_jll v1.1.21+0 [efe28fd5] + OpenSpecFun_jll v0.5.5+0 [91d4177d] + Opus_jll v1.3.2+0 [30392449] + Pixman_jll v0.42.2+0 [ea2cea3b] + Qt5Base_jll v5.15.3+2 [f50d1b31] + Rmath_jll v0.4.0+0 [fb77eaff] + Sundials_jll v5.2.1+0 [a2964d1f] + Wayland_jll v1.21.0+0 [2381bf8a] + Wayland_protocols_jll v1.25.0+0 [02c8fc9c] + XML2_jll v2.10.3+0 [aed1982a] + XSLT_jll v1.1.34+0 [4f6342f7] + Xorg_libX11_jll v1.6.9+4 [0c0b7dd1] + Xorg_libXau_jll v1.0.9+4 [935fb764] + Xorg_libXcursor_jll v1.2.0+4 [a3789734] + Xorg_libXdmcp_jll v1.1.3+4 [1082639a] + Xorg_libXext_jll v1.3.4+4 [d091e8ba] + Xorg_libXfixes_jll v5.0.3+4 [a51aa0fd] + Xorg_libXi_jll v1.7.10+4 [d1454406] + Xorg_libXinerama_jll v1.1.4+4 [ec84b674] + Xorg_libXrandr_jll v1.5.2+4 [ea2f1a96] + Xorg_libXrender_jll v0.9.10+4 [14d82f49] + Xorg_libpthread_stubs_jll v0.1.0+3 [c7cfdc94] + Xorg_libxcb_jll v1.13.0+3 [cc61e674] + Xorg_libxkbfile_jll v1.1.0+4 [12413925] + Xorg_xcb_util_image_jll v0.4.0+1 [2def613f] + Xorg_xcb_util_jll v0.4.0+1 [975044d2] + Xorg_xcb_util_keysyms_jll v0.4.0+1 [0d47668e] + Xorg_xcb_util_renderutil_jll v0.3.9+1 [c22f9ab0] + Xorg_xcb_util_wm_jll v0.4.1+1 [35661453] + Xorg_xkbcomp_jll v1.4.2+4 [33bec58e] + Xorg_xkeyboard_config_jll v2.27.0+4 [c5fb5394] + Xorg_xtrans_jll v1.4.0+3 [8f1865be] + ZeroMQ_jll v4.3.4+0 [3161d3a3] + Zstd_jll v1.5.5+0 ⌅ [214eeab7] + fzf_jll v0.29.0+0 [a4ae2306] + libaom_jll v3.4.0+0 [0ac62f75] + libass_jll v0.15.1+0 [f638f0a6] + libfdk_aac_jll v2.0.2+0 [b53b4c65] + libpng_jll v1.6.38+0 [075b6546] + libsixel_jll v1.10.3+0 [a9144af2] + libsodium_jll v1.0.20+0 [f27f6e37] + libvorbis_jll v1.3.7+1 [1270edf5] + x264_jll v2021.5.5+0 [dfaa095f] + x265_jll v3.5.0+0 [d8fb68d0] + xkbcommon_jll v1.4.1+0 [0dad84c5] + ArgTools v1.1.1 [56f22d72] + Artifacts [2a0f44e3] + Base64 [ade2ca70] + Dates [8ba89e20] + Distributed [f43a241f] + Downloads v1.6.0 [7b1f6079] + FileWatching [9fa8497b] + Future [b77e0a4c] + InteractiveUtils [4af54fe1] + LazyArtifacts [b27032c2] + LibCURL v0.6.3 [76f85450] + LibGit2 [8f399da3] + Libdl [37e2e46d] + LinearAlgebra [56ddb016] + Logging [d6f4376e] + Markdown [a63ad114] + Mmap [ca575930] + NetworkOptions v1.2.0 [44cfe95a] + Pkg v1.9.0 [de0858da] + Printf [9abbd945] + Profile [3fa0cd96] + REPL [9a3f8284] + Random [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization [1a1011a3] + SharedArrays [6462fe0b] + Sockets [2f01184e] + SparseArrays [10745b16] + Statistics v1.9.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test [cf7118a7] + UUIDs [4ec0a83e] + Unicode [e66e0078] + CompilerSupportLibraries_jll v1.0.2+0 [781609d7] + GMP_jll v6.2.1+2 [deac9b47] + LibCURL_jll v7.84.0+0 [29816b5a] + LibSSH2_jll v1.10.2+0 [c8ffd9c3] + MbedTLS_jll v2.28.2+0 [14a3606d] + MozillaCACerts_jll v2022.10.11 [4536629a] + OpenBLAS_jll v0.3.21+4 [05823500] + OpenLibm_jll v0.8.1+0 [efcefdf7] + PCRE2_jll v10.42.0+0 [bea87d4a] + SuiteSparse_jll v5.10.1+6 [83775a58] + Zlib_jll v1.2.13+0 [8e850b90] + libblastrampoline_jll v5.8.0+0 [8e850ede] + nghttp2_jll v1.48.0+0 [3f19e933] + p7zip_jll v17.4.0+0 Info Packages marked with ⌃ and ⌅ have new versions available, but those with ⌅ are restricted by compatibility constraints from upgrading. To see why use `status --outdated -m` Building WebIO ───────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/0eef0765186f7452e52236fa42ca8c9b3c11c6e3/build.log` Building Conda ───────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/915ebe6f0e7302693bdd8eac985797dba1d25662/build.log` Building IJulia ──────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/47ac8cc196b81001a711f4b2c12c97372338f00c/build.log` Building PyCall ──────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/43d304ac6f0354755f1d60730ece8c499980f7ba/build.log` Building Knockout ────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/91835de56d816864f1c38fb5e3fad6eb1e741271/build.log` Building InteractBase → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/aa5daeff326db0a9126a225b58ca04ae12f57259/build.log` Building Interact ────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/c5091992248c7134af7c90554305c600d5d9012b/build.log` Precompiling project... ✓ ADTypes ✓ SimpleUnPack ✓ LaTeXStrings ✓ Tricks ✓ Contour ✓ IteratorInterfaceExtensions ✓ StatsAPI ✓ Pipe ✓ Calculus ✓ FunctionWrappers ✓ SoftGlobalScope ✓ OpenLibm_jll ✓ Measures ✓ CompilerSupportLibraries_jll ✓ WinReg ✓ DataValueInterfaces ✓ Compat ✓ RealDot ✓ TextWrap ✓ Observables ✓ Grisu ✓ DocStringExtensions ✓ SimpleBufferStream ✓ CustomUnitRanges ✓ AbstractTrees ✓ URIs ✓ ProgressMeter ✓ CpuId ✓ DelimitedFiles ✓ InvertedIndices ✓ ExprTools ✓ UnPack ✓ UnicodeFun ✓ CommonSolve ✓ ConcurrentUtilities ✓ SuiteSparse_jll ✓ IterTools ✓ Statistics ✓ StringManipulation ✓ ShiftedArrays ✓ PoissonRandom ✓ Pidfile ✓ LazyModules ✓ Formatting ✓ DataAPI ✓ MappedArrays ✓ RangeArrays ✓ IndirectArrays ✓ IrrationalConstants ✓ AbstractFFTs ✓ Combinatorics ✓ WorkerUtilities ✓ ArgCheck ✓ BufferedStreams ✓ FastLapackInterface ✓ VersionParsing ✓ ManualMemory ✓ Crayons ✓ OrderedCollections ✓ Requires ✓ EnumX ✓ Reexport ✓ MbedTLS_jll ✓ GMP_jll ✓ TreeViews ✓ IfElse ✓ Inflate ✓ BitFlags ✓ FastClosures ✓ ConstructionBase ✓ Scratch ✓ TranscodingStreams ✓ StaticArraysCore ✓ MuladdMacro ✓ PositiveFactorizations ✓ SuiteSparse ✓ CodeTracking ✓ TensorCore ✓ CEnum ✓ WoodburyMatrices ✓ PkgVersion ✓ Krylov ✓ Unzip ✓ Preferences ✓ SIMDTypes ✓ Zlib_jll ✓ GenericSchur ✓ ExceptionUnwrapping ✓ PCRE2_jll ✓ SentinelArrays ✓ ComputationalResources ✓ TableTraits ✓ FunctionalCollections ✓ LoggingExtras ✓ FunctionWrappersWrappers ✓ Compat → CompatLinearAlgebraExt ✓ NaNMath ✓ Quaternions ✓ Showoff ✓ SymbolicIndexingInterface ✓ RuntimeGeneratedFunctions ✓ ArgParse ✓ Distances ✓ IntervalSets ✓ ScikitLearnBase ✓ KLU ✓ MacroTools ✓ Missings ✓ PooledArrays ✓ FilePathsBase ✓ ChainRulesCore ✓ LogExpFunctions ✓ FillArrays ✓ Adapt ✓ Parameters ✓ ThreadingUtilities ✓ Ratios ✓ LibSSH2_jll ✓ RelocatableFolders ✓ DiffResults ✓ RandomNumbers ✓ Static ✓ MbedTLS ✓ AxisAlgorithms ✓ PDMats ✓ JLLWrappers ✓ FixedPointNumbers ✓ SnoopPrecompile ✓ PrecompileTools ✓ CodecZlib ✓ ConstructionBase → ConstructionBaseIntervalSetsExt ✓ Tables ✓ AxisArrays ✓ CommonSubexpressions ✓ DecisionTree ✓ DataStructures ✓ FileIO ✓ SimpleTraits ✓ TruncatedStacktraces ✓ AbstractFFTs → AbstractFFTsChainRulesCoreExt ✓ IRTools ✓ ZygoteRules ✓ Lazy ✓ Highlights ✓ BitTwiddlingConvenienceFunctions ✓ LogExpFunctions → LogExpFunctionsChainRulesCoreExt ✓ Random123 ✓ OpenSSL_jll ✓ libsodium_jll ✓ Libffi_jll ✓ Wayland_protocols_jll ✓ Libuuid_jll ✓ OpenSpecFun_jll ✓ Latexify ✓ LLVMOpenMP_jll ✓ Imath_jll ✓ IntelOpenMP_jll ✓ fzf_jll ✓ JpegTurbo_jll ✓ x265_jll ✓ x264_jll ✓ Ogg_jll ✓ Libiconv_jll ✓ Sundials_jll ✓ FriBidi_jll ✓ Graphite2_jll ✓ Ghostscript_jll ✓ Xorg_libXau_jll ✓ StaticArrays ✓ libpng_jll ✓ LAME_jll ✓ Xorg_libXdmcp_jll ✓ Zstd_jll ✓ libaom_jll ✓ LLVMExtra_jll ✓ Expat_jll ✓ LZO_jll ✓ Opus_jll ✓ Libmount_jll ✓ Xorg_xtrans_jll ✓ Bzip2_jll ✓ Rmath_jll ✓ libfdk_aac_jll ✓ LERC_jll ✓ ProtoBuf ✓ FFTW_jll ✓ Libgpg_error_jll ✓ Xorg_libpthread_stubs_jll ✓ Nettle_jll ✓ ArrayLayouts ✓ Ratios → RatiosFixedPointNumbersExt ✓ ArrayInterfaceCore ✓ SortingAlgorithms ✓ CPUSummary ✓ RecipesBase ✓ QuadGK ✓ JavaCall ✓ HostCPUFeatures ✓ ColorTypes ✓ ZeroMQ_jll ✓ Pixman_jll ✓ OpenEXR_jll ✓ MKL_jll ✓ JLFzf ✓ libvorbis_jll ✓ XML2_jll ✓ OpenSSL ✓ JuliaInterpreter ✓ SpecialFunctions ✓ ArnoldiMethod ✓ ResettableStacks ✓ NearestNeighbors ✓ CoordinateTransformations ✓ RegionTrees ✓ Rotations ✓ ConstructionBase → ConstructionBaseStaticArraysExt ✓ libsixel_jll ✓ FreeType2_jll ✓ Adapt → AdaptStaticArraysExt ✓ Libtiff_jll ✓ Rmath ✓ Libgcrypt_jll ✓ PolyesterWeave ✓ Nettle ✓ StatsBase ✓ JDBC ✓ IntegralArrays ✓ QOI ✓ ZMQ ✓ LightXML ✓ LLVM ✓ Gettext_jll ✓ Wayland_jll ✓ Colors ✓ Debugger ✓ DualNumbers ✓ SpecialFunctions → SpecialFunctionsChainRulesCoreExt ✓ LevyArea ✓ DiffRules ✓ HTTP ✓ PrettyTables ✓ ColorVectorSpace ✓ Setfield ✓ LightGraphs ✓ Graphs ✓ GPUArraysCore ✓ Fontconfig_jll ✓ LittleCMS_jll ✓ OffsetArrays ✓ ArrayInterface ✓ XSLT_jll ✓ MLBase ✓ Glib_jll ✓ Graphics ✓ Clustering ✓ Widgets ✓ OpenEXR ✓ HypergeometricFunctions ✓ WebSockets ✓ FFTW ✓ VertexSafeGraphs ✓ ForwardDiff ✓ JLD2 ✓ StructArrays ✓ OpenJpeg_jll ✓ SimpleWeightedGraphs ✓ Roots ✓ GPUArrays ✓ TiledIteration ✓ PaddedViews ✓ CatIndices ✓ StackViews ✓ ArrayInterface → ArrayInterfaceGPUArraysCoreExt ✓ Sparspak ✓ ArrayInterface → ArrayInterfaceStaticArraysCoreExt ✓ ColorSchemes ✓ Polynomials ✓ Xorg_libxcb_jll ✓ Interpolations ✓ FFTViews ✓ Parsers ✓ ImageMagick_jll ✓ StatsFuns ✓ ForwardDiff → ForwardDiffStaticArraysExt ✓ Roots → RootsForwardDiffExt ✓ MosaicViews ✓ MetaGraphs ✓ Xorg_xcb_util_jll ✓ Polynomials → PolynomialsChainRulesCoreExt ✓ Xorg_libX11_jll ✓ InlineStrings ✓ StatsFuns → StatsFunsChainRulesCoreExt ✓ JSON ✓ StatsModels ✓ PreallocationTools ✓ Xorg_xcb_util_keysyms_jll ✓ ChainRules ✓ Xorg_xcb_util_renderutil_jll ✓ Xorg_xcb_util_image_jll ✓ Xorg_xcb_util_wm_jll ✓ Xorg_libXrender_jll ✓ Xorg_libXext_jll ✓ Xorg_libXfixes_jll ✓ Xorg_libxkbfile_jll ✓ Distributions ✓ DSP ✓ WeakRefStrings ✓ BenchmarkTools ✓ Conda ✓ AssetRegistry ✓ Xorg_libXinerama_jll ✓ Libglvnd_jll ✓ Xorg_libXrandr_jll ✓ Cairo_jll ✓ Xorg_libXcursor_jll ✓ PlotUtils ✓ Xorg_libXi_jll ✓ Xorg_xkbcomp_jll ✓ Distributions → DistributionsChainRulesCoreExt ✓ BandedMatrices ✓ IJulia ✓ Unitful ✓ HarfBuzz_jll ✓ WebIO ✓ PlotThemes ✓ GLFW_jll ✓ Xorg_xkeyboard_config_jll ✓ RecipesPipeline ✓ ExponentialUtilities ✓ HypothesisTests ✓ KernelDensity ✓ GLM ✓ libass_jll ✓ ArrayInterface → ArrayInterfaceBandedMatricesExt ✓ UnitfulLatexify ✓ CSSUtil ✓ PyCall ✓ JSExpr ✓ xkbcommon_jll ✓ FFMPEG_jll ✓ FiniteDiff ✓ StaticArrayInterface ✓ RecursiveArrayTools ✓ SciMLOperators ✓ Qt5Base_jll ✓ FFMPEG ✓ FiniteDiff → FiniteDiffStaticArraysExt ✓ Knockout ✓ StaticArrayInterface → StaticArrayInterfaceOffsetArraysExt ✓ NLSolversBase ✓ PyPlot ✓ FiniteDiff → FiniteDiffBandedMatricesExt ✓ CloseOpenIntervals ✓ LayoutPointers ✓ StaticArrayInterface → StaticArrayInterfaceStaticArraysExt ✓ CSV ✓ GR_jll ✓ SparseDiffTools ✓ LineSearches ✓ StrideArraysCore ✓ ImageCore ✓ InteractBase ✓ NLsolve ✓ Polyester ✓ Optim ✓ SciMLBase ✓ GR ✓ ImageBase ✓ TiffImages ✓ ImageMorphology ✓ FastBroadcast ✓ Interact ✓ Sixel ✓ JpegTurbo ✓ ImageMagick ✓ ImageAxes ✓ ImageShow ✓ ImageTransformations ✓ ImageDistances ✓ PNGFiles ✓ ImageMetadata ✓ DiffEqBase ✓ Netpbm ✓ ImageContrastAdjustment ✓ VectorizationBase ✓ DiffEqBase → DiffEqBaseUnitfulExt ✓ DiffEqBase → DiffEqBaseDistributionsExt ✓ DiffEqCallbacks ✓ ImageIO ✓ SciMLNLSolve ✓ SLEEFPirates ✓ JumpProcesses ✓ Zygote ✓ DiffEqNoiseProcess ✓ Zygote → ZygoteColorsExt ✓ Zygote → ZygoteDistancesExt ✓ RecursiveArrayTools → RecursiveArrayToolsZygoteExt ✓ SparseDiffTools → SparseDiffToolsZygoteExt ✓ SimpleNonlinearSolve ✓ DiffEqBase → DiffEqBaseZygoteExt ✓ SteadyStateDiffEq ✓ BoundaryValueDiffEq ✓ Sundials ✓ DataFrames ✓ Latexify → DataFramesExt ✓ ScikitLearn ✓ LoopVectorization ✓ LoopVectorization → SpecialFunctionsExt ✓ LoopVectorization → ForwardDiffExt ✓ TriangularSolve ✓ RecursiveFactorization ✓ ImageFiltering ✓ ImageSegmentation ✓ LinearSolve ✓ ImageQualityIndexes ✓ Images ✓ Plots ✓ Plots → IJuliaExt ✓ Plots → FileIOExt ✓ Plots → UnitfulExt ✓ NonlinearSolve ✓ OrdinaryDiffEq ✓ DelayDiffEq ✓ StochasticDiffEq ✓ DifferentialEquations 425 dependencies successfully precompiled in 469 seconds Building Conda → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/915ebe6f0e7302693bdd8eac985797dba1d25662/build.log` Building Conda ─→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/915ebe6f0e7302693bdd8eac985797dba1d25662/build.log` Building IJulia → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/47ac8cc196b81001a711f4b2c12c97372338f00c/build.log` Building WebIO ───────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/0eef0765186f7452e52236fa42ca8c9b3c11c6e3/build.log` Building Knockout ────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/91835de56d816864f1c38fb5e3fad6eb1e741271/build.log` Building InteractBase → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/aa5daeff326db0a9126a225b58ca04ae12f57259/build.log` Building Interact ────→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/c5091992248c7134af7c90554305c600d5d9012b/build.log` Building Conda ─→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/915ebe6f0e7302693bdd8eac985797dba1d25662/build.log` Building PyCall → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/43d304ac6f0354755f1d60730ece8c499980f7ba/build.log` Building Conda ─→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/915ebe6f0e7302693bdd8eac985797dba1d25662/build.log` Building PyCall → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/43d304ac6f0354755f1d60730ece8c499980f7ba/build.log` Building Conda ─→ `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/915ebe6f0e7302693bdd8eac985797dba1d25662/build.log` Building PyCall → `/opt/julia/julia-1.9/depot/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/43d304ac6f0354755f1d60730ece8c499980f7ba/build.log` ... successfully installed Julia [InstallKernelSpec] Installed kernelspec julia-1.9 in /usr/local/share/jupyter/kernels/julia-1.9 >=== 1687952856 Installing Python (3.9.17) and packages ===< Downloading Python-3.9.17.tar.xz... -> https://www.python.org/ftp/python/3.9.17/Python-3.9.17.tar.xz Installing Python-3.9.17... Installed Python-3.9.17 to /opt/pyenv/versions/3.9.17 Installed Python 3.9.17 Installing and upgrading installation prerequisites for Python 3.9.17... Requirement already satisfied: pip in /opt/pyenv/versions/3.9.17/lib/python3.9/site-packages (23.0.1) Collecting pip Downloading pip-23.1.2-py3-none-any.whl (2.1 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 2.1/2.1 MB 31.0 MB/s eta 0:00:00 Collecting poetry Downloading poetry-1.5.1-py3-none-any.whl (225 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 225.2/225.2 kB 16.2 MB/s eta 0:00:00 Collecting virtualenv<21.0.0,>=20.22.0 Downloading virtualenv-20.23.1-py3-none-any.whl (3.3 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.3/3.3 MB 24.9 MB/s eta 0:00:00 Collecting dulwich<0.22.0,>=0.21.2 Downloading dulwich-0.21.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (509 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 509.6/509.6 kB 8.4 MB/s eta 0:00:00 Collecting poetry-core==1.6.1 Downloading poetry_core-1.6.1-py3-none-any.whl (450 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 450.5/450.5 kB 19.3 MB/s eta 0:00:00 Collecting build<0.11.0,>=0.10.0 Downloading build-0.10.0-py3-none-any.whl (17 kB) Collecting requests<3.0,>=2.18 Using cached requests-2.31.0-py3-none-any.whl (62 kB) Collecting trove-classifiers>=2022.5.19 Downloading trove_classifiers-2023.5.24-py3-none-any.whl (13 kB) Collecting jsonschema<5.0.0,>=4.10.0 Using cached jsonschema-4.17.3-py3-none-any.whl (90 kB) Collecting lockfile<0.13.0,>=0.12.2 Downloading lockfile-0.12.2-py2.py3-none-any.whl (13 kB) Collecting shellingham<2.0,>=1.5 Downloading shellingham-1.5.0.post1-py2.py3-none-any.whl (9.4 kB) Collecting filelock<4.0.0,>=3.8.0 Downloading filelock-3.12.2-py3-none-any.whl (10 kB) Collecting pyproject-hooks<2.0.0,>=1.0.0 Downloading pyproject_hooks-1.0.0-py3-none-any.whl (9.3 kB) Collecting crashtest<0.5.0,>=0.4.1 Downloading crashtest-0.4.1-py3-none-any.whl (7.6 kB) Collecting keyring<24.0.0,>=23.9.0 Downloading keyring-23.13.1-py3-none-any.whl (37 kB) Collecting installer<0.8.0,>=0.7.0 Downloading installer-0.7.0-py3-none-any.whl (453 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 453.8/453.8 kB 22.6 MB/s eta 0:00:00 Collecting requests-toolbelt<2,>=0.9.1 Downloading requests_toolbelt-1.0.0-py2.py3-none-any.whl (54 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 54.5/54.5 kB 5.0 MB/s eta 0:00:00 Collecting pexpect<5.0.0,>=4.7.0 Downloading pexpect-4.8.0-py2.py3-none-any.whl (59 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 59.0/59.0 kB 5.8 MB/s eta 0:00:00 Collecting importlib-metadata>=4.4 Downloading importlib_metadata-6.7.0-py3-none-any.whl (22 kB) Collecting packaging>=20.4 Using cached packaging-23.1-py3-none-any.whl (48 kB) Collecting cachecontrol[filecache]<0.13.0,>=0.12.9 Downloading CacheControl-0.12.14-py2.py3-none-any.whl (21 kB) Collecting poetry-plugin-export<2.0.0,>=1.4.0 Downloading poetry_plugin_export-1.4.0-py3-none-any.whl (10 kB) Collecting pkginfo<2.0.0,>=1.9.4 Downloading pkginfo-1.9.6-py3-none-any.whl (30 kB) Collecting cleo<3.0.0,>=2.0.0 Downloading cleo-2.0.1-py3-none-any.whl (77 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 77.3/77.3 kB 6.3 MB/s eta 0:00:00 Collecting html5lib<2.0,>=1.0 Downloading html5lib-1.1-py2.py3-none-any.whl (112 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 112.2/112.2 kB 11.4 MB/s eta 0:00:00 Collecting urllib3<2.0.0,>=1.26.0 Downloading urllib3-1.26.16-py2.py3-none-any.whl (143 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 143.1/143.1 kB 12.1 MB/s eta 0:00:00 Collecting tomli<3.0.0,>=2.0.1 Downloading tomli-2.0.1-py3-none-any.whl (12 kB) Collecting platformdirs<4.0.0,>=3.0.0 Downloading platformdirs-3.8.0-py3-none-any.whl (16 kB) Collecting tomlkit<1.0.0,>=0.11.4 Downloading tomlkit-0.11.8-py3-none-any.whl (35 kB) Collecting msgpack>=0.5.2 Downloading msgpack-1.0.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (322 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 322.3/322.3 kB 14.4 MB/s eta 0:00:00 Collecting rapidfuzz<3.0.0,>=2.2.0 Downloading rapidfuzz-2.15.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (3.0 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.0/3.0 MB 37.1 MB/s eta 0:00:00 Collecting six>=1.9 Downloading six-1.16.0-py2.py3-none-any.whl (11 kB) Collecting webencodings Downloading webencodings-0.5.1-py2.py3-none-any.whl (11 kB) Collecting zipp>=0.5 Using cached zipp-3.15.0-py3-none-any.whl (6.8 kB) Collecting attrs>=17.4.0 Downloading attrs-23.1.0-py3-none-any.whl (61 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 61.2/61.2 kB 5.5 MB/s eta 0:00:00 Collecting pyrsistent!=0.17.0,!=0.17.1,!=0.17.2,>=0.14.0 Downloading pyrsistent-0.19.3-py3-none-any.whl (57 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 57.5/57.5 kB 5.7 MB/s eta 0:00:00 Collecting jeepney>=0.4.2 Downloading jeepney-0.8.0-py3-none-any.whl (48 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 48.4/48.4 kB 960.5 kB/s eta 0:00:00 Collecting SecretStorage>=3.2 Downloading SecretStorage-3.3.3-py3-none-any.whl (15 kB) Collecting jaraco.classes Downloading jaraco.classes-3.2.3-py3-none-any.whl (6.0 kB) Collecting ptyprocess>=0.5 Downloading ptyprocess-0.7.0-py2.py3-none-any.whl (13 kB) Collecting charset-normalizer<4,>=2 Downloading charset_normalizer-3.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (199 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 199.2/199.2 kB 17.5 MB/s eta 0:00:00 Collecting idna<4,>=2.5 Downloading idna-3.4-py3-none-any.whl (61 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 61.5/61.5 kB 4.7 MB/s eta 0:00:00 Collecting certifi>=2017.4.17 Downloading certifi-2023.5.7-py3-none-any.whl (156 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 157.0/157.0 kB 14.8 MB/s eta 0:00:00 Collecting distlib<1,>=0.3.6 Downloading distlib-0.3.6-py2.py3-none-any.whl (468 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 468.5/468.5 kB 20.6 MB/s eta 0:00:00 Collecting cryptography>=2.0 Downloading cryptography-41.0.1-cp37-abi3-manylinux_2_28_x86_64.whl (4.3 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 4.3/4.3 MB 37.4 MB/s eta 0:00:00 Collecting more-itertools Downloading more_itertools-9.1.0-py3-none-any.whl (54 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 54.2/54.2 kB 4.3 MB/s eta 0:00:00 Collecting cffi>=1.12 Downloading cffi-1.15.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (441 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 441.2/441.2 kB 19.5 MB/s eta 0:00:00 Collecting pycparser Downloading pycparser-2.21-py2.py3-none-any.whl (118 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 118.7/118.7 kB 11.2 MB/s eta 0:00:00 Installing collected packages: webencodings, trove-classifiers, ptyprocess, msgpack, lockfile, distlib, zipp, urllib3, tomlkit, tomli, six, shellingham, rapidfuzz, pyrsistent, pycparser, poetry-core, platformdirs, pkginfo, pip, pexpect, packaging, more-itertools, jeepney, installer, idna, filelock, crashtest, charset-normalizer, certifi, attrs, virtualenv, requests, pyproject-hooks, jsonschema, jaraco.classes, importlib-metadata, html5lib, dulwich, cleo, cffi, requests-toolbelt, cryptography, cachecontrol, build, SecretStorage, keyring, poetry-plugin-export, poetry Attempting uninstall: pip Found existing installation: pip 23.0.1 Uninstalling pip-23.0.1: Successfully uninstalled pip-23.0.1 Successfully installed SecretStorage-3.3.3 attrs-23.1.0 build-0.10.0 cachecontrol-0.12.14 certifi-2023.5.7 cffi-1.15.1 charset-normalizer-3.1.0 cleo-2.0.1 crashtest-0.4.1 cryptography-41.0.1 distlib-0.3.6 dulwich-0.21.5 filelock-3.12.2 html5lib-1.1 idna-3.4 importlib-metadata-6.7.0 installer-0.7.0 jaraco.classes-3.2.3 jeepney-0.8.0 jsonschema-4.17.3 keyring-23.13.1 lockfile-0.12.2 more-itertools-9.1.0 msgpack-1.0.5 packaging-23.1 pexpect-4.8.0 pip-23.1.2 pkginfo-1.9.6 platformdirs-3.8.0 poetry-1.5.1 poetry-core-1.6.1 poetry-plugin-export-1.4.0 ptyprocess-0.7.0 pycparser-2.21 pyproject-hooks-1.0.0 pyrsistent-0.19.3 rapidfuzz-2.15.1 requests-2.31.0 requests-toolbelt-1.0.0 shellingham-1.5.0.post1 six-1.16.0 tomli-2.0.1 tomlkit-0.11.8 trove-classifiers-2023.5.24 urllib3-1.26.16 virtualenv-20.23.1 webencodings-0.5.1 zipp-3.15.0 WARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv Installing packages with poetry... Skipping virtualenv creation, as specified in config file. Using version ^0.15.1 for arviz Using version ^4.12.2 for beautifulsoup4 Using version ^23.3.0 for black Using version ^0.29.35 for cython Using version ^2.11.0 for dash Using version ^2023.6.1 for dask Using version ^0.12.2 for flair Using version ^6.0.0 for flake8 Using version ^0.14.0 for folium Using version ^4.3.1 for gensim Using version ^0.13.2 for geopandas Using version ^0.26.2 for gym Using version ^1.1 for html5lib Using version ^6.23.3 for ipykernel Using version ^2.13.1 for keras Using version ^3.3.5 for lightgbm Using version ^4.9.2 for lxml Using version ^3.7.1 for matplotlib Using version ^3.8.1 for nltk Using version ^0.57.1 for numba Using version ^2.0.2 for pandas Using version ^0.7.3 for pandasql Using version ^0.3.0 for pathos Using version ^1.29.8 for pg8000 Using version ^9.5.0 for pillow Using version ^5.15.0 for plotly Using version ^1.1.4 for prophet Using version ^2.9.6 for psycopg2 Using version ^1.4.2 for pydot Using version ^2.1.4 for pygrib Using version ^2.17.4 for pylint Using version ^5.5.0 for pymc Using version ^4.0.39 for pyodbc Using version ^3.6.0 for pyproj Using version ^2.3.1 for pyshp Using version ^3.7.0 for pystan Using version ^7.4.0 for pytest Using version ^6.0 for pyyaml Using version ^2023.6.3 for regex Using version ^2.31.0 for requests Using version ^2.3.5 for safety Using version ^1.2.2 for scikit-learn Using version ^1.11.0 for scipy Using version ^0.12.2 for seaborn Using version ^0.1.2 for spacy-langdetect Using version ^3.5.3 for spacy Using version ^7.0.1 for sphinx Using version ^2.0.17 for sqlalchemy Using version ^1.12 for sympy Using version ^3.8.0 for tables Using version ^2.12.0 for tensorflow Using version ^8.1.10 for thinc Using version ^0.20.1 for tsfresh Using version ^1.9.2 for wordcloud Using version ^1.7.6 for xgboost Using version ^2.0.1 for xlrd Updating dependencies Resolving dependencies... Because no versions of clikit match >0.6,<0.6.1 || >0.6.1,<0.6.2 || >0.6.2,<0.7 and clikit (0.6.0) depends on crashtest (>=0.3.0,<0.4.0), clikit (>=0.6,<0.6.1 || >0.6.1,<0.6.2 || >0.6.2,<0.7) requires crashtest (>=0.3.0,<0.4.0). And because clikit (0.6.1) depends on crashtest (>=0.3.0,<0.4.0) and clikit (0.6.2) depends on crashtest (>=0.3.0,<0.4.0), clikit (>=0.6,<0.7) requires crashtest (>=0.3.0,<0.4.0). Because no versions of pystan match >3.7.0,<4.0.0 and pystan (3.7.0) depends on clikit (>=0.6,<0.7), pystan (>=3.7.0,<4.0.0) requires clikit (>=0.6,<0.7). (1) Thus, pystan (>=3.7.0,<4.0.0) requires crashtest (>=0.3.0,<0.4.0). Because no versions of poetry match >1.3.0,<1.3.1 || >1.3.1,<1.3.2 || >1.3.2,<1.4.0 and poetry (1.3.0) depends on crashtest (>=0.4.1,<0.5.0), poetry (>=1.3.0,<1.3.1 || >1.3.1,<1.3.2 || >1.3.2,<1.4.0) requires crashtest (>=0.4.1,<0.5.0). And because poetry (1.3.1) depends on crashtest (>=0.4.1,<0.5.0) and poetry (1.3.2) depends on crashtest (>=0.4.1,<0.5.0), poetry (>=1.3.0,<1.4.0) requires crashtest (>=0.4.1,<0.5.0). And because pystan (>=3.7.0,<4.0.0) requires crashtest (>=0.3.0,<0.4.0) (1), pystan (>=3.7.0,<4.0.0) is incompatible with poetry (>=1.3.0,<1.4.0) So, because python 3-9-17 depends on both poetry (>=1.3.0,<1.4.0) and pystan (^3.7.0), version solving failed. Could not install Python 3.9.17! Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:final' at Wed, 28 Jun 2023 10:58:04 +0000. Up 890.78 seconds. 2023-06-28 11:49:44,735 - cc_scripts_user.py[WARNING]: Failed to run module scripts-user (scripts in /var/lib/cloud/instance/scripts) 2023-06-28 11:49:44,736 - util.py[WARNING]: Running module scripts-user () failed System setup through cloud-init is finished. Configuration took 3992.02 seconds Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'init-local' at Wed, 28 Jun 2023 12:23:49 +0000. Up 6.54 seconds. Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'init' at Wed, 28 Jun 2023 12:23:52 +0000. Up 9.75 seconds. ci-info: +++++++++++++++++++++++++++++++++++++++Net device info+++++++++++++++++++++++++++++++++++++++ ci-info: +--------+------+------------------------------+---------------+--------+-------------------+ ci-info: | Device | Up | Address | Mask | Scope | Hw-Address | ci-info: +--------+------+------------------------------+---------------+--------+-------------------+ ci-info: | eth0 | True | 10.48.0.9 | 255.255.255.0 | global | 60:45:bd:f2:4e:d4 | ci-info: | eth0 | True | fe80::6245:bdff:fef2:4ed4/64 | . | link | 60:45:bd:f2:4e:d4 | ci-info: | lo | True | 127.0.0.1 | 255.0.0.0 | host | . | ci-info: | lo | True | ::1/128 | . | host | . | ci-info: +--------+------+------------------------------+---------------+--------+-------------------+ ci-info: +++++++++++++++++++++++++++++++Route IPv4 info+++++++++++++++++++++++++++++++ ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: | Route | Destination | Gateway | Genmask | Interface | Flags | ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: | 0 | 0.0.0.0 | 10.48.0.1 | 0.0.0.0 | eth0 | UG | ci-info: | 1 | 10.48.0.0 | 0.0.0.0 | 255.255.255.0 | eth0 | U | ci-info: | 2 | 168.63.129.16 | 10.48.0.1 | 255.255.255.255 | eth0 | UGH | ci-info: | 3 | 169.254.169.254 | 10.48.0.1 | 255.255.255.255 | eth0 | UGH | ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: +++++++++++++++++++Route IPv6 info+++++++++++++++++++ ci-info: +-------+-------------+---------+-----------+-------+ ci-info: | Route | Destination | Gateway | Interface | Flags | ci-info: +-------+-------------+---------+-----------+-------+ ci-info: | 1 | fe80::/64 | :: | eth0 | U | ci-info: | 3 | local | :: | eth0 | U | ci-info: | 4 | multicast | :: | eth0 | U | ci-info: +-------+-------------+---------+-----------+-------+ Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:config' at Wed, 28 Jun 2023 12:24:05 +0000. Up 22.88 seconds. Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:final' at Wed, 28 Jun 2023 12:24:06 +0000. Up 23.80 seconds. System setup through cloud-init is finished. Configuration took 25.46 seconds ```

jemrobinson commented 1 year ago

You could try "all": [">=3.0"] as the pystan requirement. There was a major rewrite between v2 and v3 so we'd still like to exclude v2 if possible.

edwardchalstrey1 commented 1 year ago

Further version/dependency problems

Poetry dependency issue

``` Using version ^2.0.1 for xlrd Updating dependencies Resolving dependencies... Because no versions of poetry match >1.3.0,<1.3.1 || >1.3.1,<1.3.2 || >1.3.2,<1.4.0 and poetry (1.3.0) depends on crashtest (>=0.4.1,<0.5.0), poetry (>=1.3.0,<1.3.1 || >1.3.1,<1.3.2 || >1.3.2,<1.4.0) requires crashtest (>=0.4.1,<0.5.0). (1) So, because poetry (1.3.1) depends on crashtest (>=0.4.1,<0.5.0) and poetry (1.3.2) depends on crashtest (>=0.4.1,<0.5.0), poetry (>=1.3.0,<1.4.0) requires crashtest (>=0.4.1,<0.5.0). Because no versions of clikit match >0.6,<0.6.1 || >0.6.1,<0.6.2 || >0.6.2,<0.7 and clikit (0.6.0) depends on crashtest (>=0.3.0,<0.4.0), clikit (>=0.6,<0.6.1 || >0.6.1,<0.6.2 || >0.6.2,<0.7) requires crashtest (>=0.3.0,<0.4.0). And because clikit (0.6.1) depends on crashtest (>=0.3.0,<0.4.0) and clikit (0.6.2) depends on crashtest (>=0.3.0,<0.4.0), clikit (>=0.6,<0.7) requires crashtest (>=0.3.0,<0.4.0). (2) So, because poetry (>=1.3.0,<1.4.0) requires crashtest (>=0.4.1,<0.5.0) (1), poetry (>=1.3.0,<1.4.0) is incompatible with clikit (>=0.6,<0.7) Because no versions of pystan match >3.0,<3.0.1 || >3.0.1,<3.0.2 || >3.0.2,<3.1.0 || >3.1.0,<3.1.1 || >3.1.1,<3.2.0 || >3.2.0,<3.3.0 || >3.3.0,<3.4.0 || >3.4.0,<3.5.0 || >3.5.0,<3.6.0 || >3.6.0,<3.7.0 || >3.7.0 and pystan (3.0.0) depends on clikit (>=0.6,<0.7), pystan (>=3.0,<3.0.1 || >3.0.1,<3.0.2 || >3.0.2,<3.1.0 || >3.1.0,<3.1.1 || >3.1.1,<3.2.0 || >3.2.0,<3.3.0 || >3.3.0,<3.4.0 || >3.4.0,<3.5.0 || >3.5.0,<3.6.0 || >3.6.0,<3.7.0 || >3.7.0) requires clikit (>=0.6,<0.7). And because pystan (3.0.1) depends on clikit (>=0.6,<0.7) and pystan (3.0.2) depends on clikit (>=0.6,<0.7), pystan (>=3.0,<3.1.0 || >3.1.0,<3.1.1 || >3.1.1,<3.2.0 || >3.2.0,<3.3.0 || >3.3.0,<3.4.0 || >3.4.0,<3.5.0 || >3.5.0,<3.6.0 || >3.6.0,<3.7.0 || >3.7.0) requires clikit (>=0.6,<0.7). And because pystan (3.1.0) depends on clikit (>=0.6,<0.7) and pystan (3.1.1) depends on clikit (>=0.6,<0.7), pystan (>=3.0,<3.2.0 || >3.2.0,<3.3.0 || >3.3.0,<3.4.0 || >3.4.0,<3.5.0 || >3.5.0,<3.6.0 || >3.6.0,<3.7.0 || >3.7.0) requires clikit (>=0.6,<0.7). And because pystan (3.2.0) depends on clikit (>=0.6,<0.7) and pystan (3.3.0) depends on clikit (>=0.6,<0.7), pystan (>=3.0,<3.4.0 || >3.4.0,<3.5.0 || >3.5.0,<3.6.0 || >3.6.0,<3.7.0 || >3.7.0) requires clikit (>=0.6,<0.7). And because pystan (3.4.0) depends on clikit (>=0.6,<0.7) and pystan (3.5.0) depends on clikit (>=0.6,<0.7), pystan (>=3.0,<3.6.0 || >3.6.0,<3.7.0 || >3.7.0) requires clikit (>=0.6,<0.7). And because pystan (3.6.0) depends on clikit (>=0.6,<0.7) and pystan (3.7.0) depends on clikit (>=0.6,<0.7), pystan (>=3.0) requires clikit (>=0.6,<0.7). And because poetry (>=1.3.0,<1.4.0) is incompatible with clikit (>=0.6,<0.7) (2), poetry (>=1.3.0,<1.4.0) is incompatible with pystan (>=3.0) So, because python 3-9-17 depends on both poetry (>=1.3.0,<1.4.0) and pystan (>=3.0), version solving failed. Could not install Python 3.9.17! ```

jemrobinson commented 1 year ago

OK, so if poetry and pystan are incompatible then feel free to drop pystan from any of the Python versions where it isn't working. This is only the pre-installed list of packages - users can still install their own packages in anything less than a tier 4.

For example

pystan:
    "3.9": ["uninstallable"]  # incompatible with poetry < 1.4

edwardchalstrey1 commented 1 year ago

That seems to have solved all Python issues, but there seems to be a problem with "Azure Data Studio" - not sure whether this is something we need in a SRD?

Azure Data Studio error

``` E: Failed to fetch http://archive.ubuntu.com/ubuntu/pool/main/m/manpages/manpages-dev_5.05-1_all.deb Connection failed [IP: 91.189.91.39 80] E: Unable to fetch some archives, maybe run apt-get update or try with --fix-missing? Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:final' at Thu, 29 Jun 2023 10:25:15 +0000. Up 67.53 seconds. 2023-06-29 10:29:14,544 - util.py[WARNING]: Failed to install packages: ['adcli', 'apt-transport-https', 'aspell', 'auditd', 'automake', 'autotools-dev', 'bison', 'blobfuse', 'build-essential', 'cargo', 'clamav', 'clamav-base', 'clamav-daemon', 'clamav-freshclam', 'clamav-unofficial-sigs', 'cmake', 'code', 'cuda', 'curl', 'dbeaver-ce', 'default-jdk', 'emacs', 'firefox', 'flex', 'g++', 'gcc', 'gdebi-core', 'gfortran', 'git', 'git-core', 'grass', 'imagemagick', 'jags', 'jupyter', 'jupyter-nbconvert', 'jupyter-notebook', 'krb5-user', 'ldap-utils', 'libboost-all-dev', 'libbz2-dev', 'libcudnn8', 'libcudnn8-dev', 'libcurl4-openssl-dev', 'libeccodes-dev', 'libffi-dev', 'libfftw3-dev', 'libfribidi-dev', 'libgdal-dev', 'libgmp-dev', 'libgsl-dev', 'libgtk2.0-dev', 'libharfbuzz-dev', 'liblapack-dev', 'liblzma-dev', 'libmagick++-dev', 'libmpfr-dev', 'libncurses5-dev', 'libncursesw5-dev', 'libopenblas-dev', 'libpoppler-cpp-dev', 'libpq-dev', 'libreadline-dev', 'libreoffice', 'libsasl2-dev', 'libsodium-dev', 'libsqlite3-dev', 'libssl-dev', 'libtool', 'libudunits2-dev', 'libv8-dev', 'libxml2-dev', 'libzmq3-dev', 'llvm', 'lyx', 'm4', 'nfs-common', 'octave', 'onboard', 'p7zip', 'parallel', 'postgresql-client', 'python3', 'python3-openssl', 'python3-pip', 'qgis', 'r-base', 'r-base-core', 'r-base-dev', 'realmd', 'ristretto', 'rustc', 'scala', 'sssd', 'sssd-tools', 'sysstat', 'texlive-full', 'texstudio', 'tk-dev', 'tmpreaper', 'unixodbc-dev', 'unzip', 'weka', 'weka-doc', 'wget', 'xfce4', 'xfce4-terminal', 'xrdp', 'xz-utils', 'zlib1g-dev', 'zsh'] 2023-06-29 10:29:14,619 - cc_package_update_upgrade_install.py[WARNING]: 1 failed with exceptions, re-raising the last one 2023-06-29 10:29:14,619 - util.py[WARNING]: Running module package-update-upgrade-install () failed >=== 1688034564 Preparing system for installation ===< Removing R updates repository... WARNING: apt does not have a stable CLI interface. Use with caution in scripts. Hit:1 https://packages.microsoft.com/ubuntu/20.04/prod focal InRelease Hit:2 https://developer.download.nvidia.com/compute/cuda/repos/ubuntu2004/x86_64 InRelease Hit:3 https://packages.microsoft.com/repos/vscode stable InRelease Hit:4 http://security.ubuntu.com/ubuntu focal-security InRelease Hit:5 http://apt.postgresql.org/pub/repos/apt focal-pgdg InRelease Hit:6 https://ubuntu.qgis.org/ubuntu focal InRelease Hit:7 http://archive.ubuntu.com/ubuntu focal InRelease Hit:8 http://archive.ubuntu.com/ubuntu focal-updates InRelease Hit:9 http://archive.ubuntu.com/ubuntu focal-backports InRelease Ign:10 http://developer.download.nvidia.com/compute/machine-learning/repos/ubuntu2004/x86_64 InRelease Hit:11 http://developer.download.nvidia.com/compute/machine-learning/repos/ubuntu2004/x86_64 Release Hit:12 https://dbeaver.io/debs/dbeaver-ce InRelease Reading package lists... Building dependency tree... Reading state information... All packages are up to date. Reading package lists... Building dependency tree... Reading state information... Del r-base-html 4.3.1-1.2004.0 [93.8 kB] Del r-cran-rpart 4.1.19-1.2004.0 [911 kB] Del r-cran-class 7.3-21-1.2004.0 [87.7 kB] Del r-cran-foreign 0.8.82-1.2004.0 [238 kB] Del r-base 4.3.1-1.2004.0 [45.6 kB] Del r-cran-nnet 7.3-18-1.2004.0 [112 kB] Del jags 4.3.2-1.2004.1 [1562 kB] Del r-cran-mgcv 1.8-42-1cran1.2004.0 [3180 kB] Del r-recommended 4.3.1-1.2004.0 [2776 B] Del r-cran-matrix 1.5-4.1-1.2004.0 [3850 kB] Del r-cran-kernsmooth 2.23-21-1cran1.2004.0 [89.9 kB] Del r-doc-html 4.3.1-1.2004.0 [590 kB] Del r-cran-survival 3.5-5-1cran1.2004.0 [5927 kB] Del r-cran-spatial 7.3-11-2focal0 [127 kB] Del r-cran-nlme 3.1.162-1.2004.0 [2250 kB] Del r-base-core 4.3.1-1.2004.0 [26.9 MB] Del r-cran-cluster 2.1.4-1.2004.0 [550 kB] Del r-cran-codetools 0.2-19-1cran1.2004.0 [90.6 kB] Del r-cran-boot 1.3-28-1cran1.2004.0 [619 kB] Del r-cran-lattice 0.21-8-1cran1.2004.0 [1371 kB] Del r-cran-mass 7.3-59-1.2004.0 [1118 kB] Del r-base-dev 4.3.1-1.2004.0 [4488 B] Reading package lists... Building dependency tree... Reading state information... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Installing python packages... /var/lib/cloud/instance/scripts/runcmd: 16: pip3: not found /var/lib/cloud/instance/scripts/runcmd: 17: pip3: not found Setting up glances... Suppressing apt prompts... Adding PATH setting to default bashrc >=== 1688034570 Installing additional deb/source packages ===< Adding snap to path... Installing Microsoft ODBC tools... nohup: failed to run command 'glances': No such file or directory Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: libodbc1 odbcinst odbcinst1debian2 unixodbc Suggested packages: unixodbc-bin The following NEW packages will be installed: libodbc1 msodbcsql17 mssql-tools odbcinst odbcinst1debian2 unixodbc 0 upgraded, 6 newly installed, 0 to remove and 0 not upgraded. Need to get 955 kB/1613 kB of archives. After this operation, 1059 kB of additional disk space will be used. Get:1 https://packages.microsoft.com/ubuntu/20.04/prod focal/main amd64 msodbcsql17 amd64 17.10.4.1-1 [745 kB] Get:2 https://packages.microsoft.com/ubuntu/20.04/prod focal/main amd64 mssql-tools amd64 17.10.1.1-1 [211 kB] Preconfiguring packages ... Fetched 955 kB in 0s (8129 kB/s) Selecting previously unselected package libodbc1:amd64. (Reading database ... 84088 files and directories currently installed.) Preparing to unpack .../0-libodbc1_2.3.11-1_amd64.deb ... Unpacking libodbc1:amd64 (2.3.11-1) ... Selecting previously unselected package odbcinst1debian2:amd64. Preparing to unpack .../1-odbcinst1debian2_2.3.11-1_amd64.deb ... Unpacking odbcinst1debian2:amd64 (2.3.11-1) ... Selecting previously unselected package odbcinst. Preparing to unpack .../2-odbcinst_2.3.11-1_amd64.deb ... Unpacking odbcinst (2.3.11-1) ... Selecting previously unselected package unixodbc. Preparing to unpack .../3-unixodbc_2.3.11-1_amd64.deb ... Unpacking unixodbc (2.3.11-1) ... Selecting previously unselected package msodbcsql17. Preparing to unpack .../4-msodbcsql17_17.10.4.1-1_amd64.deb ... Unpacking msodbcsql17 (17.10.4.1-1) ... Selecting previously unselected package mssql-tools. Preparing to unpack .../5-mssql-tools_17.10.1.1-1_amd64.deb ... Unpacking mssql-tools (17.10.1.1-1) ... Setting up libodbc1:amd64 (2.3.11-1) ... Setting up odbcinst (2.3.11-1) ... Setting up odbcinst1debian2:amd64 (2.3.11-1) ... Setting up unixodbc (2.3.11-1) ... Setting up msodbcsql17 (17.10.4.1-1) ... odbcinst: Driver installed. Usage count increased to 1. Target directory is /etc Setting up mssql-tools (17.10.1.1-1) ... Processing triggers for man-db (2.9.1-1) ... Processing triggers for libc-bin (2.31-0ubuntu9.9) ... ... successfully installed Microsoft ODBC tools Installing Azure Data Studio... Downloading and verifying deb file... 2023-06-29 10:29:46 URL:https://sqlopsbuilds.azureedge.net/stable/b790d700898b1095d83e62f0de14678a58222520/azuredatastudio-linux-1.43.0.deb [134746244/134746244] -> "/opt/build/azuredatastudio-linux-1.43.0.deb" [1] -rw-r--r-- 1 root root 129M Apr 11 00:57 /opt/build/azuredatastudio-linux-1.43.0.deb Installing deb file: /opt/build/azuredatastudio-linux-1.43.0.deb /opt/build/download_and_install_deb.sh: line 42: gdebi: command not found Could not install Azure Data Studio! 2023-06-29 10:29:47,504 - cc_scripts_user.py[WARNING]: Failed to run module scripts-user (scripts in /var/lib/cloud/instance/scripts) 2023-06-29 10:29:47,504 - util.py[WARNING]: Running module scripts-user () failed System setup through cloud-init is finished. Configuration took 339.52 seconds Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'init-local' at Thu, 29 Jun 2023 12:04:09 +0000. Up 5.89 seconds. Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'init' at Thu, 29 Jun 2023 12:04:11 +0000. Up 8.62 seconds. ci-info: ++++++++++++++++++++++++++++++++++++++Net device info+++++++++++++++++++++++++++++++++++++++ ci-info: +--------+------+-----------------------------+---------------+--------+-------------------+ ci-info: | Device | Up | Address | Mask | Scope | Hw-Address | ci-info: +--------+------+-----------------------------+---------------+--------+-------------------+ ci-info: | eth0 | True | 10.48.0.11 | 255.255.255.0 | global | 00:22:48:01:b5:0c | ci-info: | eth0 | True | fe80::222:48ff:fe01:b50c/64 | . | link | 00:22:48:01:b5:0c | ci-info: | lo | True | 127.0.0.1 | 255.0.0.0 | host | . | ci-info: | lo | True | ::1/128 | . | host | . | ci-info: +--------+------+-----------------------------+---------------+--------+-------------------+ ci-info: +++++++++++++++++++++++++++++++Route IPv4 info+++++++++++++++++++++++++++++++ ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: | Route | Destination | Gateway | Genmask | Interface | Flags | ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: | 0 | 0.0.0.0 | 10.48.0.1 | 0.0.0.0 | eth0 | UG | ci-info: | 1 | 10.48.0.0 | 0.0.0.0 | 255.255.255.0 | eth0 | U | ci-info: | 2 | 168.63.129.16 | 10.48.0.1 | 255.255.255.255 | eth0 | UGH | ci-info: | 3 | 169.254.169.254 | 10.48.0.1 | 255.255.255.255 | eth0 | UGH | ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: +++++++++++++++++++Route IPv6 info+++++++++++++++++++ ci-info: +-------+-------------+---------+-----------+-------+ ci-info: | Route | Destination | Gateway | Interface | Flags | ci-info: +-------+-------------+---------+-----------+-------+ ci-info: | 1 | fe80::/64 | :: | eth0 | U | ci-info: | 3 | local | :: | eth0 | U | ci-info: | 4 | multicast | :: | eth0 | U | ci-info: +-------+-------------+---------+-----------+-------+ Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:config' at Thu, 29 Jun 2023 12:04:23 +0000. Up 19.88 seconds. Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:final' at Thu, 29 Jun 2023 12:04:23 +0000. Up 20.57 seconds. System setup through cloud-init is finished. Configuration took 20.87 seconds ```

jemrobinson commented 1 year ago

Can you see the first error in that log extract? What does it say? What do you think the solution might be?

edwardchalstrey1 commented 1 year ago

How about this: https://github.com/alan-turing-institute/data-safe-haven/pull/1494/files#diff-36be5faed69d88cab6e29c016dcbc944921f617db1bd0c1605499715276d8041

edwardchalstrey1 commented 1 year ago

Side question: Why do we support 3 different Ubuntu versions for the SRD?

jemrobinson commented 1 year ago

How about this: https://github.com/alan-turing-institute/data-safe-haven/pull/1494/files#diff-36be5faed69d88cab6e29c016dcbc944921f617db1bd0c1605499715276d8041

It's a good idea but it probably won't work. What's happening here is that during the package_install step (which happens before run_commands) the VM couldn't update one or more of the Ubuntu repositories. This means that it didn't see a load of packages that it needed to install and so skipped them. Running apt-get update --fix-missing will install missing dependencies of already-installed packages but it won't install the ones that we wanted which were skipped.

The best solution is just to rerun the deployment script and hope that the connection error was temporary (it usually is).

jemrobinson commented 1 year ago

Side question: Why do we support 3 different Ubuntu versions for the SRD?

We started with 18.04 and switched to 20.04 when it became available. We've basically dropped support for 18.04 but the scripts are still there in case anyone needs them for some reason. We'd like to switch to 22.04 but several of the Azure features (like automatic updates) don't support 22.04 yet.

edwardchalstrey1 commented 1 year ago

after removing pystan from all Python versions, I'm now back to the original 'Python2Supports' error:

latest error

``` • Installing wordcloud (1.9.2) • Installing xgboost (1.7.6) • Installing xlrd (2.0.1) Writing lock file Skipping virtualenv creation, as specified in config file. Skipping virtualenv creation, as specified in config file. Running post-install commands... 2023-06-30 13:18:35,577 : __main__ : INFO : Creating /usr/share/gensim_data [=============================---------------------] 59.1% 18.7/31.6MB downloadedTraceback (most recent call last): [============================----------------------] 56.3% 10.8/19.2MB downloadedTraceback (most recent call last): /opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py:127: RuntimeWarning: 'nltk.downloader' found in sys.modules after import of package 'nltk', but prior to execution of 'nltk.downloader'; this may result in unpredictable behaviour warn(RuntimeWarning(msg)) [nltk_data] Downloading collection 'all' [nltk_data] | [nltk_data] | Downloading package abc to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/abc.zip. [nltk_data] | Downloading package alpino to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/alpino.zip. [nltk_data] | Downloading package averaged_perceptron_tagger to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping taggers/averaged_perceptron_tagger.zip. [nltk_data] | Downloading package averaged_perceptron_tagger_ru to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping [nltk_data] | taggers/averaged_perceptron_tagger_ru.zip. [nltk_data] | Downloading package basque_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/basque_grammars.zip. [nltk_data] | Downloading package bcp47 to /usr/share/nltk_data... [nltk_data] | Downloading package biocreative_ppi to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/biocreative_ppi.zip. [nltk_data] | Downloading package bllip_wsj_no_aux to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping models/bllip_wsj_no_aux.zip. [nltk_data] | Downloading package book_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/book_grammars.zip. [nltk_data] | Downloading package brown to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/brown.zip. [nltk_data] | Downloading package brown_tei to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/brown_tei.zip. [nltk_data] | Downloading package cess_cat to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/cess_cat.zip. [nltk_data] | Downloading package cess_esp to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/cess_esp.zip. [nltk_data] | Downloading package chat80 to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/chat80.zip. [nltk_data] | Downloading package city_database to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/city_database.zip. [nltk_data] | Downloading package cmudict to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/cmudict.zip. [nltk_data] | Downloading package comparative_sentences to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/comparative_sentences.zip. [nltk_data] | Downloading package comtrans to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package conll2000 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/conll2000.zip. [nltk_data] | Downloading package conll2002 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/conll2002.zip. [nltk_data] | Downloading package conll2007 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package crubadan to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/crubadan.zip. [nltk_data] | Downloading package dependency_treebank to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/dependency_treebank.zip. [nltk_data] | Downloading package dolch to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/dolch.zip. [nltk_data] | Downloading package europarl_raw to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/europarl_raw.zip. [nltk_data] | Downloading package extended_omw to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package floresta to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/floresta.zip. [nltk_data] | Downloading package framenet_v15 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/framenet_v15.zip. [nltk_data] | Downloading package framenet_v17 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/framenet_v17.zip. [nltk_data] | Downloading package gazetteers to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/gazetteers.zip. [nltk_data] | Downloading package genesis to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/genesis.zip. [nltk_data] | Downloading package gutenberg to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/gutenberg.zip. [nltk_data] | Downloading package ieer to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/ieer.zip. [nltk_data] | Downloading package inaugural to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/inaugural.zip. [nltk_data] | Downloading package indian to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/indian.zip. [nltk_data] | Downloading package jeita to /usr/share/nltk_data... [nltk_data] | Downloading package kimmo to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/kimmo.zip. [nltk_data] | Downloading package knbc to /usr/share/nltk_data... [nltk_data] | Downloading package large_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/large_grammars.zip. [nltk_data] | Downloading package lin_thesaurus to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/lin_thesaurus.zip. [nltk_data] | Downloading package mac_morpho to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/mac_morpho.zip. [nltk_data] | Downloading package machado to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package masc_tagged to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package maxent_ne_chunker to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping chunkers/maxent_ne_chunker.zip. [nltk_data] | Downloading package maxent_treebank_pos_tagger to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping taggers/maxent_treebank_pos_tagger.zip. [nltk_data] | Downloading package moses_sample to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping models/moses_sample.zip. [nltk_data] | Downloading package movie_reviews to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/movie_reviews.zip. [nltk_data] | Downloading package mte_teip5 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/mte_teip5.zip. [nltk_data] | Downloading package mwa_ppdb to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping misc/mwa_ppdb.zip. [nltk_data] | Downloading package names to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/names.zip. [nltk_data] | Downloading package nombank.1.0 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package nonbreaking_prefixes to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/nonbreaking_prefixes.zip. [nltk_data] | Downloading package nps_chat to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/nps_chat.zip. [nltk_data] | Downloading package omw to /usr/share/nltk_data... [nltk_data] | Downloading package omw-1.4 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package opinion_lexicon to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/opinion_lexicon.zip. [nltk_data] | Downloading package panlex_swadesh to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package paradigms to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/paradigms.zip. [nltk_data] | Downloading package pe08 to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/pe08.zip. [nltk_data] | Downloading package perluniprops to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping misc/perluniprops.zip. [nltk_data] | Downloading package pil to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/pil.zip. [nltk_data] | Downloading package pl196x to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/pl196x.zip. [nltk_data] | Downloading package porter_test to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping stemmers/porter_test.zip. [nltk_data] | Downloading package ppattach to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/ppattach.zip. [nltk_data] | Downloading package problem_reports to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/problem_reports.zip. [nltk_data] | Downloading package product_reviews_1 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/product_reviews_1.zip. [nltk_data] | Downloading package product_reviews_2 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/product_reviews_2.zip. [nltk_data] | Downloading package propbank to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package pros_cons to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/pros_cons.zip. [nltk_data] | Downloading package ptb to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/ptb.zip. [nltk_data] | Downloading package punkt to /usr/share/nltk_data... [nltk_data] | Unzipping tokenizers/punkt.zip. [nltk_data] | Downloading package qc to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/qc.zip. [nltk_data] | Downloading package reuters to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package rslp to /usr/share/nltk_data... [nltk_data] | Unzipping stemmers/rslp.zip. [nltk_data] | Downloading package rte to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/rte.zip. [nltk_data] | Downloading package sample_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/sample_grammars.zip. [nltk_data] | Downloading package semcor to /usr/share/nltk_data... [nltk_data] | Downloading package senseval to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/senseval.zip. [nltk_data] | Downloading package sentence_polarity to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/sentence_polarity.zip. [nltk_data] | Downloading package sentiwordnet to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/sentiwordnet.zip. [nltk_data] | Downloading package shakespeare to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/shakespeare.zip. [nltk_data] | Downloading package sinica_treebank to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/sinica_treebank.zip. [nltk_data] | Downloading package smultron to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/smultron.zip. [nltk_data] | Downloading package snowball_data to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package spanish_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/spanish_grammars.zip. [nltk_data] | Downloading package state_union to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/state_union.zip. [nltk_data] | Downloading package stopwords to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/stopwords.zip. [nltk_data] | Downloading package subjectivity to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/subjectivity.zip. [nltk_data] | Downloading package swadesh to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/swadesh.zip. [nltk_data] | Downloading package switchboard to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/switchboard.zip. [nltk_data] | Downloading package tagsets to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping help/tagsets.zip. [nltk_data] | Downloading package timit to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/timit.zip. [nltk_data] | Downloading package toolbox to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/toolbox.zip. [nltk_data] | Downloading package treebank to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/treebank.zip. [nltk_data] | Downloading package twitter_samples to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/twitter_samples.zip. [nltk_data] | Downloading package udhr to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/udhr.zip. [nltk_data] | Downloading package udhr2 to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/udhr2.zip. [nltk_data] | Downloading package unicode_samples to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/unicode_samples.zip. [nltk_data] | Downloading package universal_tagset to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping taggers/universal_tagset.zip. [nltk_data] | Downloading package universal_treebanks_v20 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package vader_lexicon to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package verbnet to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/verbnet.zip. [nltk_data] | Downloading package verbnet3 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/verbnet3.zip. [nltk_data] | Downloading package webtext to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/webtext.zip. [nltk_data] | Downloading package wmt15_eval to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping models/wmt15_eval.zip. [nltk_data] | Downloading package word2vec_sample to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping models/word2vec_sample.zip. [nltk_data] | Downloading package wordnet to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package wordnet2021 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package wordnet2022 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/wordnet2022.zip. [nltk_data] | Downloading package wordnet31 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package wordnet_ic to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/wordnet_ic.zip. [nltk_data] | Downloading package words to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/words.zip. [nltk_data] | Downloading package ycoe to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/ycoe.zip. [nltk_data] | [nltk_data] Done downloading collection all Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 168, in _load_global_deps ctypes.CDLL(lib_path, mode=ctypes.RTLD_GLOBAL) File "/opt/pyenv/versions/3.9.17/lib/python3.9/ctypes/__init__.py", line 374, in __init__ self._handle = _dlopen(self._name, mode) OSError: libcufft.so.10: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 188, in _run_module_as_main mod_name, mod_spec, code = _get_module_details(mod_name, _Error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 147, in _get_module_details return _get_module_details(pkg_main_name, error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 111, in _get_module_details __import__(pkg_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/__init__.py", line 6, in from .errors import setup_default_warnings File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/errors.py", line 2, in from .compat import Literal File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/compat.py", line 3, in from thinc.util import copy_array File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/__init__.py", line 5, in from .config import registry File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/config.py", line 4, in from .types import Decorator File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/types.py", line 8, in from .compat import has_cupy, cupy File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/compat.py", line 30, in import torch.utils.dlpack File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 228, in _load_global_deps() File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 189, in _load_global_deps _preload_cuda_deps(lib_folder, lib_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 154, in _preload_cuda_deps raise ValueError(f"{lib_name} not found in the system path {sys.path}") ValueError: libcublas.so.*[0-9] not found in the system path ['/', '/opt/pyenv/versions/3.9.17/lib/python39.zip', '/opt/pyenv/versions/3.9.17/lib/python3.9', '/opt/pyenv/versions/3.9.17/lib/python3.9/lib-dynload', '/root/.local/lib/python3.9/site-packages', '/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages'] Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 168, in _load_global_deps ctypes.CDLL(lib_path, mode=ctypes.RTLD_GLOBAL) File "/opt/pyenv/versions/3.9.17/lib/python3.9/ctypes/__init__.py", line 374, in __init__ self._handle = _dlopen(self._name, mode) OSError: libcufft.so.10: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 188, in _run_module_as_main mod_name, mod_spec, code = _get_module_details(mod_name, _Error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 147, in _get_module_details return _get_module_details(pkg_main_name, error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 111, in _get_module_details __import__(pkg_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/__init__.py", line 6, in from .errors import setup_default_warnings File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/errors.py", line 2, in from .compat import Literal File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/compat.py", line 3, in from thinc.util import copy_array File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/__init__.py", line 5, in from .config import registry File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/config.py", line 4, in from .types import Decorator File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/types.py", line 8, in from .compat import has_cupy, cupy File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/compat.py", line 30, in import torch.utils.dlpack File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 228, in _load_global_deps() File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 189, in _load_global_deps _preload_cuda_deps(lib_folder, lib_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 154, in _preload_cuda_deps raise ValueError(f"{lib_name} not found in the system path {sys.path}") ValueError: libcublas.so.*[0-9] not found in the system path ['/', '/opt/pyenv/versions/3.9.17/lib/python39.zip', '/opt/pyenv/versions/3.9.17/lib/python3.9', '/opt/pyenv/versions/3.9.17/lib/python3.9/lib-dynload', '/root/.local/lib/python3.9/site-packages', '/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages'] Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 168, in _load_global_deps ctypes.CDLL(lib_path, mode=ctypes.RTLD_GLOBAL) File "/opt/pyenv/versions/3.9.17/lib/python3.9/ctypes/__init__.py", line 374, in __init__ self._handle = _dlopen(self._name, mode) OSError: libcufft.so.10: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 188, in _run_module_as_main mod_name, mod_spec, code = _get_module_details(mod_name, _Error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 147, in _get_module_details return _get_module_details(pkg_main_name, error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 111, in _get_module_details __import__(pkg_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/__init__.py", line 6, in from .errors import setup_default_warnings File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/errors.py", line 2, in from .compat import Literal File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/compat.py", line 3, in from thinc.util import copy_array File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/__init__.py", line 5, in from .config import registry File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/config.py", line 4, in from .types import Decorator File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/types.py", line 8, in from .compat import has_cupy, cupy File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/compat.py", line 30, in import torch.utils.dlpack File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 228, in _load_global_deps() File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 189, in _load_global_deps _preload_cuda_deps(lib_folder, lib_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 154, in _preload_cuda_deps raise ValueError(f"{lib_name} not found in the system path {sys.path}") ValueError: libcublas.so.*[0-9] not found in the system path ['/', '/opt/pyenv/versions/3.9.17/lib/python39.zip', '/opt/pyenv/versions/3.9.17/lib/python3.9', '/opt/pyenv/versions/3.9.17/lib/python3.9/lib-dynload', '/root/.local/lib/python3.9/site-packages', '/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages'] All requested Python 3.9.17 packages are installed Running safety check on Python 3.9.17 installation... +==============================================================================+ /$$$$$$ /$$ /$$__ $$ | $$ /$$$$$$$ /$$$$$$ | $$ \__//$$$$$$ /$$$$$$ /$$ /$$ /$$_____/ |____ $$| $$$$ /$$__ $$|_ $$_/ | $$ | $$ | $$$$$$ /$$$$$$$| $$_/ | $$$$$$$$ | $$ | $$ | $$ \____ $$ /$$__ $$| $$ | $$_____/ | $$ /$$| $$ | $$ /$$$$$$$/| $$$$$$$| $$ | $$$$$$$ | $$$$/| $$$$$$$ |_______/ \_______/|__/ \_______/ \___/ \____ $$ /$$ | $$ | $$$$$$/ by pyup.io \______/ +==============================================================================+ REPORT Safety is using PyUp's free open-source vulnerability database. This data is 30 days old and limited. For real-time enhanced vulnerability data, fix recommendations, severity reporting, cybersecurity support, team and project policy management and more sign up at https://pyup.io or email sales@pyup.io Safety v2.4.0b1 is scanning for Vulnerabilities... Scanning dependencies in your environment: -> /opt/pyenv/versions/3.9.17/lib/python3.9/lib-dynload -> /opt/pyenv/versions/3.9.17/lib/python3.9/site-packages -> /opt/pyenv/versions/3.9.17/bin -> /opt/pyenv/versions/3.9.17/lib/python39.zip -> /opt/pyenv/versions/3.9.17/lib/python3.9 -> /root/.local/lib/python3.9/site-packages Using open-source vulnerability database Found and scanned 308 packages Timestamp 2023-06-30 13:19:40 1 vulnerability reported 0 vulnerabilities ignored +==============================================================================+ VULNERABILITIES REPORTED +==============================================================================+ -> Vulnerability found in transformers version 4.19.2 Vulnerability ID: 51450 Affected spec: <4.23.0 ADVISORY: Transformers 4.23.0 includes a fix for a link vulnerable to... PVE-2022-51450 For more information about this vulnerability, visit https://pyup.io/v/51450/97c To ignore this vulnerability, use PyUp vulnerability id 51450 in safety’s ignore command-line argument or add the ignore to your safety policy file. +==============================================================================+ REMEDIATIONS 1 vulnerability was reported in 1 package. For detailed remediation & fix recommendations, upgrade to a commercial license. +==============================================================================+ Scan was completed. 1 vulnerability was reported. +==============================================================================+ Safety is using PyUp's free open-source vulnerability database. This data is 30 days old and limited. For real-time enhanced vulnerability data, fix recommendations, severity reporting, cybersecurity support, team and project policy management and more sign up at https://pyup.io or email sales@pyup.io +==============================================================================+ >=== 1688131181 Installing Python (3.10.12) and packages ===< Downloading Python-3.10.12.tar.xz... -> https://www.python.org/ftp/python/3.10.12/Python-3.10.12.tar.xz Installing Python-3.10.12... Installed Python-3.10.12 to /opt/pyenv/versions/3.10.12 Installed Python 3.10.12 Installing and upgrading installation prerequisites for Python 3.10.12... Requirement already satisfied: pip in /opt/pyenv/versions/3.10.12/lib/python3.10/site-packages (23.0.1) Collecting pip Using cached pip-23.1.2-py3-none-any.whl (2.1 MB) Collecting poetry Using cached poetry-1.5.1-py3-none-any.whl (225 kB) Collecting pyproject-hooks<2.0.0,>=1.0.0 Using cached pyproject_hooks-1.0.0-py3-none-any.whl (9.3 kB) Collecting cleo<3.0.0,>=2.0.0 Using cached cleo-2.0.1-py3-none-any.whl (77 kB) Collecting html5lib<2.0,>=1.0 Using cached html5lib-1.1-py2.py3-none-any.whl (112 kB) Collecting tomli<3.0.0,>=2.0.1 Using cached tomli-2.0.1-py3-none-any.whl (12 kB) Collecting trove-classifiers>=2022.5.19 Using cached trove_classifiers-2023.5.24-py3-none-any.whl (13 kB) Collecting filelock<4.0.0,>=3.8.0 Using cached filelock-3.12.2-py3-none-any.whl (10 kB) Collecting poetry-plugin-export<2.0.0,>=1.4.0 Using cached poetry_plugin_export-1.4.0-py3-none-any.whl (10 kB) Collecting installer<0.8.0,>=0.7.0 Using cached installer-0.7.0-py3-none-any.whl (453 kB) Collecting lockfile<0.13.0,>=0.12.2 Using cached lockfile-0.12.2-py2.py3-none-any.whl (13 kB) Collecting shellingham<2.0,>=1.5 Using cached shellingham-1.5.0.post1-py2.py3-none-any.whl (9.4 kB) Collecting tomlkit<1.0.0,>=0.11.4 Using cached tomlkit-0.11.8-py3-none-any.whl (35 kB) Collecting pkginfo<2.0.0,>=1.9.4 Using cached pkginfo-1.9.6-py3-none-any.whl (30 kB) Collecting urllib3<2.0.0,>=1.26.0 Using cached urllib3-1.26.16-py2.py3-none-any.whl (143 kB) Collecting virtualenv<21.0.0,>=20.22.0 Using cached virtualenv-20.23.1-py3-none-any.whl (3.3 MB) Collecting dulwich<0.22.0,>=0.21.2 Downloading dulwich-0.21.5-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (510 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 510.1/510.1 kB 14.5 MB/s eta 0:00:00 Collecting requests-toolbelt<2,>=0.9.1 Using cached requests_toolbelt-1.0.0-py2.py3-none-any.whl (54 kB) Collecting pexpect<5.0.0,>=4.7.0 Using cached pexpect-4.8.0-py2.py3-none-any.whl (59 kB) Collecting jsonschema<5.0.0,>=4.10.0 Using cached jsonschema-4.17.3-py3-none-any.whl (90 kB) Collecting packaging>=20.4 Using cached packaging-23.1-py3-none-any.whl (48 kB) Collecting platformdirs<4.0.0,>=3.0.0 Using cached platformdirs-3.8.0-py3-none-any.whl (16 kB) Collecting cachecontrol[filecache]<0.13.0,>=0.12.9 Using cached CacheControl-0.12.14-py2.py3-none-any.whl (21 kB) Collecting requests<3.0,>=2.18 Using cached requests-2.31.0-py3-none-any.whl (62 kB) Collecting crashtest<0.5.0,>=0.4.1 Using cached crashtest-0.4.1-py3-none-any.whl (7.6 kB) Collecting poetry-core==1.6.1 Using cached poetry_core-1.6.1-py3-none-any.whl (450 kB) Collecting keyring<24.0.0,>=23.9.0 Using cached keyring-23.13.1-py3-none-any.whl (37 kB) Collecting build<0.11.0,>=0.10.0 Using cached build-0.10.0-py3-none-any.whl (17 kB) Collecting msgpack>=0.5.2 Downloading msgpack-1.0.5-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (316 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 316.8/316.8 kB 10.0 MB/s eta 0:00:00 Collecting rapidfuzz<3.0.0,>=2.2.0 Downloading rapidfuzz-2.15.1-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (3.0 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.0/3.0 MB 57.1 MB/s eta 0:00:00 Collecting webencodings Using cached webencodings-0.5.1-py2.py3-none-any.whl (11 kB) Collecting six>=1.9 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB) Collecting pyrsistent!=0.17.0,!=0.17.1,!=0.17.2,>=0.14.0 Using cached pyrsistent-0.19.3-py3-none-any.whl (57 kB) Collecting attrs>=17.4.0 Using cached attrs-23.1.0-py3-none-any.whl (61 kB) Collecting SecretStorage>=3.2 Using cached SecretStorage-3.3.3-py3-none-any.whl (15 kB) Collecting jaraco.classes Using cached jaraco.classes-3.2.3-py3-none-any.whl (6.0 kB) Collecting importlib-metadata>=4.11.4 Using cached importlib_metadata-6.7.0-py3-none-any.whl (22 kB) Collecting jeepney>=0.4.2 Using cached jeepney-0.8.0-py3-none-any.whl (48 kB) Collecting ptyprocess>=0.5 Using cached ptyprocess-0.7.0-py2.py3-none-any.whl (13 kB) Collecting charset-normalizer<4,>=2 Downloading charset_normalizer-3.1.0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (199 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 199.3/199.3 kB 13.5 MB/s eta 0:00:00 Collecting certifi>=2017.4.17 Using cached certifi-2023.5.7-py3-none-any.whl (156 kB) Collecting idna<4,>=2.5 Using cached idna-3.4-py3-none-any.whl (61 kB) Collecting distlib<1,>=0.3.6 Using cached distlib-0.3.6-py2.py3-none-any.whl (468 kB) Collecting zipp>=0.5 Using cached zipp-3.15.0-py3-none-any.whl (6.8 kB) Collecting cryptography>=2.0 Using cached cryptography-41.0.1-cp37-abi3-manylinux_2_28_x86_64.whl (4.3 MB) Collecting more-itertools Using cached more_itertools-9.1.0-py3-none-any.whl (54 kB) Collecting cffi>=1.12 Downloading cffi-1.15.1-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (441 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 441.8/441.8 kB 22.3 MB/s eta 0:00:00 Collecting pycparser Using cached pycparser-2.21-py2.py3-none-any.whl (118 kB) Installing collected packages: webencodings, trove-classifiers, ptyprocess, msgpack, lockfile, distlib, zipp, urllib3, tomlkit, tomli, six, shellingham, rapidfuzz, pyrsistent, pycparser, poetry-core, platformdirs, pkginfo, pip, pexpect, packaging, more-itertools, jeepney, installer, idna, filelock, crashtest, charset-normalizer, certifi, attrs, virtualenv, requests, pyproject-hooks, jsonschema, jaraco.classes, importlib-metadata, html5lib, dulwich, cleo, cffi, requests-toolbelt, cryptography, cachecontrol, build, SecretStorage, keyring, poetry-plugin-export, poetry Attempting uninstall: pip Found existing installation: pip 23.0.1 Uninstalling pip-23.0.1: Successfully uninstalled pip-23.0.1 Successfully installed SecretStorage-3.3.3 attrs-23.1.0 build-0.10.0 cachecontrol-0.12.14 certifi-2023.5.7 cffi-1.15.1 charset-normalizer-3.1.0 cleo-2.0.1 crashtest-0.4.1 cryptography-41.0.1 distlib-0.3.6 dulwich-0.21.5 filelock-3.12.2 html5lib-1.1 idna-3.4 importlib-metadata-6.7.0 installer-0.7.0 jaraco.classes-3.2.3 jeepney-0.8.0 jsonschema-4.17.3 keyring-23.13.1 lockfile-0.12.2 more-itertools-9.1.0 msgpack-1.0.5 packaging-23.1 pexpect-4.8.0 pip-23.1.2 pkginfo-1.9.6 platformdirs-3.8.0 poetry-1.5.1 poetry-core-1.6.1 poetry-plugin-export-1.4.0 ptyprocess-0.7.0 pycparser-2.21 pyproject-hooks-1.0.0 pyrsistent-0.19.3 rapidfuzz-2.15.1 requests-2.31.0 requests-toolbelt-1.0.0 shellingham-1.5.0.post1 six-1.16.0 tomli-2.0.1 tomlkit-0.11.8 trove-classifiers-2023.5.24 urllib3-1.26.16 virtualenv-20.23.1 webencodings-0.5.1 zipp-3.15.0 WARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv Installing packages with poetry... Skipping virtualenv creation, as specified in config file. Using version ^0.15.1 for arviz Using version ^4.12.2 for beautifulsoup4 Using version ^23.3.0 for black Using version ^0.29.35 for cython Using version ^2.11.1 for dash Using version ^2023.6.1 for dask Using version ^0.12.2 for flair Using version ^6.0.0 for flake8 Using version ^0.14.0 for folium Using version ^4.3.1 for gensim Using version ^0.13.2 for geopandas Using version ^0.26.2 for gym Using version ^1.1 for html5lib Using version ^6.23.3 for ipykernel Using version ^2.13.1 for keras Using version ^3.3.5 for lightgbm Using version ^4.9.2 for lxml Using version ^3.7.1 for matplotlib Using version ^3.8.1 for nltk Using version ^0.57.1 for numba Using version ^2.0.3 for pandas Using version ^0.7.3 for pandasql Using version ^0.3.0 for pathos Using version ^1.29.8 for pg8000 Using version ^9.5.0 for pillow Using version ^5.15.0 for plotly Using version ^1.1.4 for prophet Using version ^2.9.6 for psycopg2 Using version ^1.4.2 for pydot Using version ^2.1.4 for pygrib Using version ^2.17.4 for pylint Using version ^5.5.0 for pymc Using version ^4.0.39 for pyodbc Using version ^3.6.0 for pyproj Using version ^2.3.1 for pyshp Using version ^7.4.0 for pytest Using version ^6.0 for pyyaml Using version ^2023.6.3 for regex Using version ^2.31.0 for requests Using version ^2.3.5 for safety Using version ^1.3.0 for scikit-learn Using version ^1.11.1 for scipy Using version ^0.12.2 for seaborn Using version ^0.1.2 for spacy-langdetect Using version ^3.5.4 for spacy Using version ^7.0.1 for sphinx Using version ^2.0.17 for sqlalchemy Using version ^1.12 for sympy Using version ^3.8.0 for tables Using version ^2.12.0 for tensorflow Using version ^8.1.10 for thinc Using version ^0.20.1 for tsfresh Using version ^1.9.2 for wordcloud Using version ^1.7.6 for xgboost Using version ^2.0.1 for xlrd Updating dependencies Resolving dependencies... Package operations: 259 installs, 9 updates, 0 removals • Installing frozenlist (1.3.3) • Installing multidict (6.0.4) • Installing multipledispatch (1.0.0) • Installing toolz (0.12.0) • Installing aiosignal (1.3.1) • Installing async-timeout (4.0.2) • Installing logical-unification (0.4.6) • Installing mpmath (1.3.0) • Installing pyasn1 (0.5.0) • Installing markupsafe (2.1.3) • Installing python-dateutil (2.8.2) • Installing pytz (2023.3) • Installing tzdata (2023.3) • Installing yarl (1.9.2) • Installing numpy (1.24.4) • Installing aiohttp (3.8.4) • Installing cachetools (5.3.1) • Installing catalogue (2.0.8) • Installing dill (0.3.6) • Installing fsspec (2023.6.0) • Installing jinja2 (3.1.2) • Installing cons (0.4.6) • Installing networkx (3.1) • Installing jmespath (1.0.1) • Installing locket (1.0.0) • Updating packaging (23.1 -> 23.0) • Installing oauthlib (3.2.2) • Installing pandas (2.0.3) • Installing pyasn1-modules (0.3.0) • Installing pyyaml (6.0) • Installing rsa (4.9) • Installing sympy (1.12) • Installing tqdm (4.65.0) • Installing typing-extensions (4.5.0) • Installing asttokens (2.2.1) • Installing botocore (1.29.164) • Installing click (8.1.3) • Installing cloudpickle (2.2.1) • Installing contourpy (1.1.0) • Installing cycler (0.11.0) • Installing cymem (2.0.7) • Installing etuples (0.3.9) • Installing executing (1.2.0) • Installing fonttools (4.40.0) • Installing google-auth (2.21.0) • Installing h5py (3.9.0) • Installing huggingface-hub (0.15.1) • Installing kiwisolver (1.4.4) • Installing llvmlite (0.40.1) • Installing multiprocess (0.70.14) • Installing murmurhash (1.0.9) • Installing parso (0.8.3) • Installing partd (1.4.0) • Installing pillow (9.5.0) • Updating platformdirs (3.8.0 -> 2.6.2) • Installing pure-eval (0.2.2) • Installing pyarrow (12.0.1) • Installing pydantic (1.10.10) • Installing pyparsing (3.1.0) • Installing pysocks (1.7.1) • Installing regex (2023.6.3) • Installing requests-oauthlib (1.3.1) • Installing scipy (1.11.1) • 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jupyter-core (5.3.1) • Installing lazy-object-proxy (1.9.0) • Installing markdown (3.4.3) • Installing matplotlib (3.7.1) • Installing matplotlib-inline (0.1.6) • Installing minikanren (1.0.3) • Installing numba (0.57.1) • Installing patsy (0.5.3) • Installing pickleshare (0.7.5) • Installing pluggy (1.2.0) • Updating poetry-core (1.6.1 -> 1.4.0) • Installing preshed (3.0.8) • Installing prompt-toolkit (3.0.38) • Installing protobuf (4.23.3) • Installing psutil (5.9.5) • Installing py4j (0.10.9.7) • Installing pygments (2.15.1) • Installing pymeeus (0.5.12) • Installing pyzmq (25.1.0) • Installing ruamel-yaml-clib (0.2.7) • Installing s3transfer (0.6.1) • Installing sentencepiece (0.1.99) • Updating setuptools (65.5.0 -> 68.0.0) • Installing sortedcontainers (2.4.0) • Installing stack-data (0.6.2) • Installing tblib (2.0.0) • Installing tenacity (8.2.2) • Installing tensorboard-data-server (0.7.1) • Installing threadpoolctl (3.1.0) • Installing tornado (6.3.2) • Installing transformers (4.19.2) • Installing typer (0.9.0) • Installing wasabi (1.1.2) • Installing werkzeug (2.2.3) • Installing wheel (0.40.0) • Installing wrapt (1.15.0) • Installing xarray-einstats (0.5.1) • Installing zict (3.0.0) • Installing alabaster (0.7.13) • Installing ansi2html (1.8.0) • Installing arviz (0.15.1) • Installing astroid (2.15.5) • Installing astunparse (1.6.3) • Installing babel (2.12.1) • Installing blosc2 (2.0.0) • Installing boto3 (1.26.164) • Installing bpemb (0.3.4) • Installing branca (0.6.0) • Installing cmdstanpy (1.1.0) • Installing comm (0.1.3) • Installing conllu (4.5.3) • Installing convertdate (2.4.0) • Installing cython (0.29.35) • Installing dash-core-components (2.0.0) • Installing dash-html-components (2.0.0) • Installing dash-table (5.0.0) • Installing debugpy (1.6.7) • Installing deprecated (1.2.14) • Installing distributed (2023.6.1) • Installing docutils (0.20.1) • Installing dparse (0.6.3) • Updating dulwich (0.21.5 -> 0.20.50) • Installing fastprogress (1.0.3) • Installing fiona (1.9.4.post1) • Installing flask (2.2.5) • Installing flatbuffers (23.5.26) • Installing ftfy (6.1.1) • Installing gast (0.4.0) • Installing gdown (4.4.0) • Installing google-pasta (0.2.0) • Installing gym-notices (0.0.8) • Installing holidays (0.27.1) • Installing hyperopt (0.2.7) • Installing imageio (2.31.1) • Installing imagesize (1.4.1) • Installing importlib-resources (5.12.0) • Installing ipython (8.14.0) • Installing isort (5.12.0) • Installing janome (0.4.2) • Installing jupyter-client (8.3.0) • Installing keras (2.13.1) • Installing langcodes (3.3.0) • Installing langdetect (1.0.7) • Installing lazy-loader (0.2) • Installing libclang (16.0.0) • Installing lunarcalendar (0.0.9) • Installing lxml (4.9.2) • Installing marshmallow (3.19.0) • Installing mccabe (0.7.0) • Installing mpld3 (0.3) • Installing mypy-extensions (1.0.0) • Installing nest-asyncio (1.5.6) • Installing numexpr (2.8.4) • Installing opt-einsum (3.3.0) • Installing pathspec (0.11.1) • Installing pathy (0.10.2) • Installing plotly (5.15.0) • Updating poetry-plugin-export (1.4.0 -> 1.3.1) • Installing pox (0.3.2) • Installing ppft (1.7.6.6) • Installing pptree (3.1) • Installing py-cpuinfo (9.0.0) • Installing pycodestyle (2.10.0) • Installing pyflakes (3.0.1) • Installing pyproj (3.6.0) • Installing pytensor (2.12.3) • Installing pytest (7.4.0) • Installing pytorch-revgrad (0.2.0) • Installing pywavelets (1.4.1) • Updating requests-toolbelt (1.0.0 -> 0.10.1) • Installing retrying (1.3.4) • Installing ruamel-yaml (0.17.32) • Installing scikit-learn (1.3.0) • Installing scramp (1.4.4) • Installing segtok (1.5.11) • Installing shapely (2.0.1) • Installing snowballstemmer (2.2.0) • Installing spacy-legacy (3.0.12) • Installing spacy-loggers (1.0.4) • Installing sphinxcontrib-applehelp (1.0.4) • Installing sphinxcontrib-devhelp (1.0.2) • Installing sphinxcontrib-htmlhelp (2.0.1) • Installing sphinxcontrib-jsmath (1.0.1) • Installing sphinxcontrib-qthelp (1.0.3) • Installing sphinxcontrib-serializinghtml (1.1.5) • Installing sqlalchemy (2.0.17) • Installing sqlitedict (2.1.0) • Installing statsmodels (0.14.0) • Installing stumpy (1.11.1) • Installing tabulate (0.9.0) • Installing tensorboard (2.13.0) • Installing tensorflow-estimator (2.13.0) • Installing tensorflow-io-gcs-filesystem (0.32.0) • Installing termcolor (2.3.0) • Installing thinc (8.1.10) • Installing tifffile (2023.4.12) • Installing transformer-smaller-training-vocab (0.2.4) • Updating virtualenv (20.23.1 -> 20.21.1) • Installing wikipedia-api (0.6.0) • Installing black (23.3.0) • Installing dash (2.11.1) • Installing flair (0.12.2) • Installing flake8 (6.0.0) • Installing folium (0.14.0) • Installing geopandas (0.13.2) • Installing gym (0.26.2) • Installing ipykernel (6.23.3) • Installing lightgbm (3.3.5) • Installing nltk (3.8.1) • Installing pandasql (0.7.3) • Installing pathos (0.3.0) • Installing pg8000 (1.29.8) • Updating poetry (1.5.1 -> 1.3.2) • Installing prophet (1.1.4) • Installing psycopg2 (2.9.6) • Installing pydot (1.4.2) • Installing pygrib (2.1.4) • Installing pylint (2.17.4) • Installing pymc (5.5.0) • Installing pyodbc (4.0.39) • Installing pyshp (2.3.1) • Installing safety (2.4.0b1) • Installing scikit-image (0.21.0) • Installing seaborn (0.12.2) • Installing spacy (3.5.4) • Installing spacy-langdetect (0.1.2) • Installing sphinx (7.0.1) • Installing tables (3.8.0) • Installing tensorflow (2.13.0rc2) • Installing tsfresh (0.20.1) • Installing wordcloud (1.9.2) • Installing xgboost (1.7.6) • Installing xlrd (2.0.1) ImportError cannot import name 'Python2Supports' from 'virtualenv.create.describe' (/opt/pyenv/versions/3.10.12/lib/python3.10/site-packages/virtualenv/create/describe.py) at /opt/pyenv/versions/3.10.12/lib/python3.10/site-packages/virtualenv/create/via_global_ref/builtin/python2/python2.py:6 in 2│ import json 3│ import os 4│ from pathlib import Path 5│ → 6│ from virtualenv.create.describe import Python2Supports 7│ from virtualenv.create.via_global_ref.builtin.ref import PathRefToDest 8│ from virtualenv.info import IS_ZIPAPP 9│ from virtualenv.util.zipapp import read as read_from_zipapp 10│ Could not install Python 3.10.12! Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:final' at Fri, 30 Jun 2023 12:18:16 +0000. Up 140.66 seconds. 2023-06-30 13:24:19,007 - cc_scripts_user.py[WARNING]: Failed to run module scripts-user (scripts in /var/lib/cloud/instance/scripts) 2023-06-30 13:24:19,008 - util.py[WARNING]: Running module scripts-user () failed System setup through cloud-init is finished. Configuration took 4105.61 seconds Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'init-local' at Fri, 30 Jun 2023 14:32:47 +0000. Up 7.41 seconds. Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'init' at Fri, 30 Jun 2023 14:32:50 +0000. Up 10.43 seconds. ci-info: ++++++++++++++++++++++++++++++++++++++Net device info+++++++++++++++++++++++++++++++++++++++ ci-info: +--------+------+-----------------------------+---------------+--------+-------------------+ ci-info: | Device | Up | Address | Mask | Scope | Hw-Address | ci-info: +--------+------+-----------------------------+---------------+--------+-------------------+ ci-info: | eth0 | True | 10.48.0.5 | 255.255.255.0 | global | 00:22:48:40:22:11 | ci-info: | eth0 | True | fe80::222:48ff:fe40:2211/64 | . | link | 00:22:48:40:22:11 | ci-info: | lo | True | 127.0.0.1 | 255.0.0.0 | host | . | ci-info: | lo | True | ::1/128 | . | host | . | ci-info: +--------+------+-----------------------------+---------------+--------+-------------------+ ci-info: +++++++++++++++++++++++++++++++Route IPv4 info+++++++++++++++++++++++++++++++ ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: | Route | Destination | Gateway | Genmask | Interface | Flags | ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: | 0 | 0.0.0.0 | 10.48.0.1 | 0.0.0.0 | eth0 | UG | ci-info: | 1 | 10.48.0.0 | 0.0.0.0 | 255.255.255.0 | eth0 | U | ci-info: | 2 | 168.63.129.16 | 10.48.0.1 | 255.255.255.255 | eth0 | UGH | ci-info: | 3 | 169.254.169.254 | 10.48.0.1 | 255.255.255.255 | eth0 | UGH | ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: +++++++++++++++++++Route IPv6 info+++++++++++++++++++ ci-info: +-------+-------------+---------+-----------+-------+ ci-info: | Route | Destination | Gateway | Interface | Flags | ci-info: +-------+-------------+---------+-----------+-------+ ci-info: | 1 | fe80::/64 | :: | eth0 | U | ci-info: | 3 | local | :: | eth0 | U | ci-info: | 4 | multicast | :: | eth0 | U | ci-info: +-------+-------------+---------+-----------+-------+ Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:config' at Fri, 30 Jun 2023 14:33:00 +0000. Up 21.13 seconds. Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:final' at Fri, 30 Jun 2023 14:33:01 +0000. Up 22.04 seconds. System setup through cloud-init is finished. Configuration took 22.63 seconds ```

Oh this is weird, it's trying to install torch again

edwardchalstrey1 commented 1 year ago

I'm going to try removing keras and tsfresh too, since these both have torch as a dependency, which may be why it's still being installed

edwardchalstrey1 commented 1 year ago

Latest error:

Python2Suppports virtualenv error

``` • Installing spacy (3.5.4) • Installing spacy-langdetect (0.1.2) • Installing sphinx (7.0.1) • Installing statsmodels (0.14.0) • Installing tables (3.8.0) • Installing tensorflow (2.12.0) • Installing wordcloud (1.9.2) • Installing xgboost (1.7.6) • Installing xlrd (2.0.1) Writing lock file Skipping virtualenv creation, as specified in config file. Skipping virtualenv creation, as specified in config file. Running post-install commands... 2023-06-30 15:52:31,656 : __main__ : INFO : Creating /usr/share/gensim_data [========================--------------------------] 48.4% 15.3/31.6MB downloadedTraceback (most recent call last): [========================================----------] 80.2% 15.4/19.2MB downloadedTraceback (most recent call last): /opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py:127: RuntimeWarning: 'nltk.downloader' found in sys.modules after import of package 'nltk', but prior to execution of 'nltk.downloader'; this may result in unpredictable behaviour warn(RuntimeWarning(msg)) [nltk_data] Downloading collection 'all' [nltk_data] | [nltk_data] | Downloading package abc to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/abc.zip. [nltk_data] | Downloading package alpino to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/alpino.zip. [nltk_data] | Downloading package averaged_perceptron_tagger to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping taggers/averaged_perceptron_tagger.zip. [nltk_data] | Downloading package averaged_perceptron_tagger_ru to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping [nltk_data] | taggers/averaged_perceptron_tagger_ru.zip. [nltk_data] | Downloading package basque_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/basque_grammars.zip. [nltk_data] | Downloading package bcp47 to /usr/share/nltk_data... [nltk_data] | Downloading package biocreative_ppi to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/biocreative_ppi.zip. [nltk_data] | Downloading package bllip_wsj_no_aux to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping models/bllip_wsj_no_aux.zip. [nltk_data] | Downloading package book_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/book_grammars.zip. [nltk_data] | Downloading package brown to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/brown.zip. [nltk_data] | Downloading package brown_tei to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/brown_tei.zip. [nltk_data] | Downloading package cess_cat to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/cess_cat.zip. [nltk_data] | Downloading package cess_esp to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/cess_esp.zip. [nltk_data] | Downloading package chat80 to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/chat80.zip. [nltk_data] | Downloading package city_database to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/city_database.zip. [nltk_data] | Downloading package cmudict to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/cmudict.zip. [nltk_data] | Downloading package comparative_sentences to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/comparative_sentences.zip. [nltk_data] | Downloading package comtrans to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package conll2000 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/conll2000.zip. [nltk_data] | Downloading package conll2002 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/conll2002.zip. [nltk_data] | Downloading package conll2007 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package crubadan to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/crubadan.zip. [nltk_data] | Downloading package dependency_treebank to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/dependency_treebank.zip. [nltk_data] | Downloading package dolch to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/dolch.zip. [nltk_data] | Downloading package europarl_raw to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/europarl_raw.zip. [nltk_data] | Downloading package extended_omw to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package floresta to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/floresta.zip. [nltk_data] | Downloading package framenet_v15 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/framenet_v15.zip. [nltk_data] | Downloading package framenet_v17 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/framenet_v17.zip. [nltk_data] | Downloading package gazetteers to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/gazetteers.zip. [nltk_data] | Downloading package genesis to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/genesis.zip. [nltk_data] | Downloading package gutenberg to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/gutenberg.zip. [nltk_data] | Downloading package ieer to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/ieer.zip. [nltk_data] | Downloading package inaugural to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/inaugural.zip. [nltk_data] | Downloading package indian to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/indian.zip. [nltk_data] | Downloading package jeita to /usr/share/nltk_data... [nltk_data] | Downloading package kimmo to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/kimmo.zip. [nltk_data] | Downloading package knbc to /usr/share/nltk_data... [nltk_data] | Downloading package large_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/large_grammars.zip. [nltk_data] | Downloading package lin_thesaurus to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/lin_thesaurus.zip. [nltk_data] | Downloading package mac_morpho to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/mac_morpho.zip. [nltk_data] | Downloading package machado to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package masc_tagged to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package maxent_ne_chunker to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping chunkers/maxent_ne_chunker.zip. [nltk_data] | Downloading package maxent_treebank_pos_tagger to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping taggers/maxent_treebank_pos_tagger.zip. [nltk_data] | Downloading package moses_sample to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping models/moses_sample.zip. [nltk_data] | Downloading package movie_reviews to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/movie_reviews.zip. [nltk_data] | Downloading package mte_teip5 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/mte_teip5.zip. [nltk_data] | Downloading package mwa_ppdb to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping misc/mwa_ppdb.zip. [nltk_data] | Downloading package names to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/names.zip. [nltk_data] | Downloading package nombank.1.0 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package nonbreaking_prefixes to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/nonbreaking_prefixes.zip. [nltk_data] | Downloading package nps_chat to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/nps_chat.zip. [nltk_data] | Downloading package omw to /usr/share/nltk_data... [nltk_data] | Downloading package omw-1.4 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package opinion_lexicon to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/opinion_lexicon.zip. [nltk_data] | Downloading package panlex_swadesh to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package paradigms to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/paradigms.zip. [nltk_data] | Downloading package pe08 to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/pe08.zip. [nltk_data] | Downloading package perluniprops to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping misc/perluniprops.zip. [nltk_data] | Downloading package pil to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/pil.zip. [nltk_data] | Downloading package pl196x to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/pl196x.zip. [nltk_data] | Downloading package porter_test to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping stemmers/porter_test.zip. [nltk_data] | Downloading package ppattach to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/ppattach.zip. [nltk_data] | Downloading package problem_reports to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/problem_reports.zip. [nltk_data] | Downloading package product_reviews_1 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/product_reviews_1.zip. [nltk_data] | Downloading package product_reviews_2 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/product_reviews_2.zip. [nltk_data] | Downloading package propbank to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package pros_cons to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/pros_cons.zip. [nltk_data] | Downloading package ptb to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/ptb.zip. [nltk_data] | Downloading package punkt to /usr/share/nltk_data... [nltk_data] | Unzipping tokenizers/punkt.zip. [nltk_data] | Downloading package qc to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/qc.zip. [nltk_data] | Downloading package reuters to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package rslp to /usr/share/nltk_data... [nltk_data] | Unzipping stemmers/rslp.zip. [nltk_data] | Downloading package rte to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/rte.zip. [nltk_data] | Downloading package sample_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/sample_grammars.zip. [nltk_data] | Downloading package semcor to /usr/share/nltk_data... [nltk_data] | Downloading package senseval to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/senseval.zip. [nltk_data] | Downloading package sentence_polarity to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/sentence_polarity.zip. [nltk_data] | Downloading package sentiwordnet to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/sentiwordnet.zip. [nltk_data] | Downloading package shakespeare to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/shakespeare.zip. [nltk_data] | Downloading package sinica_treebank to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/sinica_treebank.zip. [nltk_data] | Downloading package smultron to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/smultron.zip. [nltk_data] | Downloading package snowball_data to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package spanish_grammars to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping grammars/spanish_grammars.zip. [nltk_data] | Downloading package state_union to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/state_union.zip. [nltk_data] | Downloading package stopwords to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/stopwords.zip. [nltk_data] | Downloading package subjectivity to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/subjectivity.zip. [nltk_data] | Downloading package swadesh to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/swadesh.zip. [nltk_data] | Downloading package switchboard to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/switchboard.zip. [nltk_data] | Downloading package tagsets to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping help/tagsets.zip. [nltk_data] | Downloading package timit to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/timit.zip. [nltk_data] | Downloading package toolbox to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/toolbox.zip. [nltk_data] | Downloading package treebank to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/treebank.zip. [nltk_data] | Downloading package twitter_samples to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/twitter_samples.zip. [nltk_data] | Downloading package udhr to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/udhr.zip. [nltk_data] | Downloading package udhr2 to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/udhr2.zip. [nltk_data] | Downloading package unicode_samples to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/unicode_samples.zip. [nltk_data] | Downloading package universal_tagset to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping taggers/universal_tagset.zip. [nltk_data] | Downloading package universal_treebanks_v20 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package vader_lexicon to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package verbnet to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/verbnet.zip. [nltk_data] | Downloading package verbnet3 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/verbnet3.zip. [nltk_data] | Downloading package webtext to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/webtext.zip. [nltk_data] | Downloading package wmt15_eval to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping models/wmt15_eval.zip. [nltk_data] | Downloading package word2vec_sample to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping models/word2vec_sample.zip. [nltk_data] | Downloading package wordnet to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package wordnet2021 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package wordnet2022 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/wordnet2022.zip. [nltk_data] | Downloading package wordnet31 to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Downloading package wordnet_ic to [nltk_data] | /usr/share/nltk_data... [nltk_data] | Unzipping corpora/wordnet_ic.zip. [nltk_data] | Downloading package words to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/words.zip. [nltk_data] | Downloading package ycoe to /usr/share/nltk_data... [nltk_data] | Unzipping corpora/ycoe.zip. [nltk_data] | [nltk_data] Done downloading collection all Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 168, in _load_global_deps ctypes.CDLL(lib_path, mode=ctypes.RTLD_GLOBAL) File "/opt/pyenv/versions/3.9.17/lib/python3.9/ctypes/__init__.py", line 374, in __init__ self._handle = _dlopen(self._name, mode) OSError: libcufft.so.10: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 188, in _run_module_as_main mod_name, mod_spec, code = _get_module_details(mod_name, _Error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 147, in _get_module_details return _get_module_details(pkg_main_name, error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 111, in _get_module_details __import__(pkg_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/__init__.py", line 6, in from .errors import setup_default_warnings File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/errors.py", line 2, in from .compat import Literal File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/compat.py", line 3, in from thinc.util import copy_array File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/__init__.py", line 5, in from .config import registry File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/config.py", line 4, in from .types import Decorator File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/types.py", line 8, in from .compat import has_cupy, cupy File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/compat.py", line 30, in import torch.utils.dlpack File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 228, in _load_global_deps() File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 189, in _load_global_deps _preload_cuda_deps(lib_folder, lib_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 154, in _preload_cuda_deps raise ValueError(f"{lib_name} not found in the system path {sys.path}") ValueError: libcublas.so.*[0-9] not found in the system path ['/', '/opt/pyenv/versions/3.9.17/lib/python39.zip', '/opt/pyenv/versions/3.9.17/lib/python3.9', '/opt/pyenv/versions/3.9.17/lib/python3.9/lib-dynload', '/root/.local/lib/python3.9/site-packages', '/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages'] Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 168, in _load_global_deps ctypes.CDLL(lib_path, mode=ctypes.RTLD_GLOBAL) File "/opt/pyenv/versions/3.9.17/lib/python3.9/ctypes/__init__.py", line 374, in __init__ self._handle = _dlopen(self._name, mode) OSError: libcufft.so.10: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 188, in _run_module_as_main mod_name, mod_spec, code = _get_module_details(mod_name, _Error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 147, in _get_module_details return _get_module_details(pkg_main_name, error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 111, in _get_module_details __import__(pkg_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/__init__.py", line 6, in from .errors import setup_default_warnings File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/errors.py", line 2, in from .compat import Literal File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/compat.py", line 3, in from thinc.util import copy_array File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/__init__.py", line 5, in from .config import registry File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/config.py", line 4, in from .types import Decorator File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/types.py", line 8, in from .compat import has_cupy, cupy File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/compat.py", line 30, in import torch.utils.dlpack File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 228, in _load_global_deps() File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 189, in _load_global_deps _preload_cuda_deps(lib_folder, lib_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 154, in _preload_cuda_deps raise ValueError(f"{lib_name} not found in the system path {sys.path}") ValueError: libcublas.so.*[0-9] not found in the system path ['/', '/opt/pyenv/versions/3.9.17/lib/python39.zip', '/opt/pyenv/versions/3.9.17/lib/python3.9', '/opt/pyenv/versions/3.9.17/lib/python3.9/lib-dynload', '/root/.local/lib/python3.9/site-packages', '/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages'] Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 168, in _load_global_deps ctypes.CDLL(lib_path, mode=ctypes.RTLD_GLOBAL) File "/opt/pyenv/versions/3.9.17/lib/python3.9/ctypes/__init__.py", line 374, in __init__ self._handle = _dlopen(self._name, mode) OSError: libcufft.so.10: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 188, in _run_module_as_main mod_name, mod_spec, code = _get_module_details(mod_name, _Error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 147, in _get_module_details return _get_module_details(pkg_main_name, error) File "/opt/pyenv/versions/3.9.17/lib/python3.9/runpy.py", line 111, in _get_module_details __import__(pkg_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/__init__.py", line 6, in from .errors import setup_default_warnings File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/errors.py", line 2, in from .compat import Literal File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/spacy/compat.py", line 3, in from thinc.util import copy_array File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/__init__.py", line 5, in from .config import registry File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/config.py", line 4, in from .types import Decorator File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/types.py", line 8, in from .compat import has_cupy, cupy File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/thinc/compat.py", line 30, in import torch.utils.dlpack File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 228, in _load_global_deps() File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 189, in _load_global_deps _preload_cuda_deps(lib_folder, lib_name) File "/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages/torch/__init__.py", line 154, in _preload_cuda_deps raise ValueError(f"{lib_name} not found in the system path {sys.path}") ValueError: libcublas.so.*[0-9] not found in the system path ['/', '/opt/pyenv/versions/3.9.17/lib/python39.zip', '/opt/pyenv/versions/3.9.17/lib/python3.9', '/opt/pyenv/versions/3.9.17/lib/python3.9/lib-dynload', '/root/.local/lib/python3.9/site-packages', '/opt/pyenv/versions/3.9.17/lib/python3.9/site-packages'] All requested Python 3.9.17 packages are installed Running safety check on Python 3.9.17 installation... +==============================================================================+ /$$$$$$ /$$ /$$__ $$ | $$ /$$$$$$$ /$$$$$$ | $$ \__//$$$$$$ /$$$$$$ /$$ /$$ /$$_____/ |____ $$| $$$$ /$$__ $$|_ $$_/ | $$ | $$ | $$$$$$ /$$$$$$$| $$_/ | $$$$$$$$ | $$ | $$ | $$ \____ $$ /$$__ $$| $$ | $$_____/ | $$ /$$| $$ | $$ /$$$$$$$/| $$$$$$$| $$ | $$$$$$$ | $$$$/| $$$$$$$ |_______/ \_______/|__/ \_______/ \___/ \____ $$ /$$ | $$ | $$$$$$/ by pyup.io \______/ +==============================================================================+ REPORT Safety is using PyUp's free open-source vulnerability database. This data is 30 days old and limited. For real-time enhanced vulnerability data, fix recommendations, severity reporting, cybersecurity support, team and project policy management and more sign up at https://pyup.io or email sales@pyup.io Safety v2.4.0b1 is scanning for Vulnerabilities... Scanning dependencies in your environment: -> /root/.local/lib/python3.9/site-packages -> /opt/pyenv/versions/3.9.17/lib/python39.zip -> /opt/pyenv/versions/3.9.17/lib/python3.9 -> /opt/pyenv/versions/3.9.17/lib/python3.9/lib-dynload -> /opt/pyenv/versions/3.9.17/lib/python3.9/site-packages -> /opt/pyenv/versions/3.9.17/bin Using open-source vulnerability database Found and scanned 304 packages Timestamp 2023-06-30 15:53:56 1 vulnerability reported 0 vulnerabilities ignored +==============================================================================+ VULNERABILITIES REPORTED +==============================================================================+ -> Vulnerability found in transformers version 4.19.2 Vulnerability ID: 51450 Affected spec: <4.23.0 ADVISORY: Transformers 4.23.0 includes a fix for a link vulnerable to... PVE-2022-51450 For more information about this vulnerability, visit https://pyup.io/v/51450/97c To ignore this vulnerability, use PyUp vulnerability id 51450 in safety’s ignore command-line argument or add the ignore to your safety policy file. +==============================================================================+ REMEDIATIONS 1 vulnerability was reported in 1 package. For detailed remediation & fix recommendations, upgrade to a commercial license. +==============================================================================+ Scan was completed. 1 vulnerability was reported. +==============================================================================+ Safety is using PyUp's free open-source vulnerability database. This data is 30 days old and limited. For real-time enhanced vulnerability data, fix recommendations, severity reporting, cybersecurity support, team and project policy management and more sign up at https://pyup.io or email sales@pyup.io +==============================================================================+ >=== 1688140440 Installing Python (3.10.12) and packages ===< Downloading Python-3.10.12.tar.xz... -> https://www.python.org/ftp/python/3.10.12/Python-3.10.12.tar.xz Installing Python-3.10.12... Installed Python-3.10.12 to /opt/pyenv/versions/3.10.12 Installed Python 3.10.12 Installing and upgrading installation prerequisites for Python 3.10.12... Requirement already satisfied: pip in /opt/pyenv/versions/3.10.12/lib/python3.10/site-packages (23.0.1) Collecting pip Using cached pip-23.1.2-py3-none-any.whl (2.1 MB) Collecting poetry Using cached poetry-1.5.1-py3-none-any.whl (225 kB) Collecting keyring<24.0.0,>=23.9.0 Using cached keyring-23.13.1-py3-none-any.whl (37 kB) Collecting virtualenv<21.0.0,>=20.22.0 Using cached virtualenv-20.23.1-py3-none-any.whl (3.3 MB) Collecting requests<3.0,>=2.18 Using cached requests-2.31.0-py3-none-any.whl (62 kB) Collecting pexpect<5.0.0,>=4.7.0 Using cached pexpect-4.8.0-py2.py3-none-any.whl (59 kB) Collecting build<0.11.0,>=0.10.0 Using cached build-0.10.0-py3-none-any.whl (17 kB) Collecting lockfile<0.13.0,>=0.12.2 Using cached lockfile-0.12.2-py2.py3-none-any.whl (13 kB) Collecting packaging>=20.4 Using cached packaging-23.1-py3-none-any.whl (48 kB) Collecting trove-classifiers>=2022.5.19 Using cached trove_classifiers-2023.5.24-py3-none-any.whl (13 kB) Collecting tomli<3.0.0,>=2.0.1 Using 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cachecontrol[filecache]<0.13.0,>=0.12.9 Using cached CacheControl-0.12.14-py2.py3-none-any.whl (21 kB) Collecting pkginfo<2.0.0,>=1.9.4 Using cached pkginfo-1.9.6-py3-none-any.whl (30 kB) Collecting dulwich<0.22.0,>=0.21.2 Downloading dulwich-0.21.5-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (510 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 510.1/510.1 kB 20.8 MB/s eta 0:00:00 Collecting tomlkit<1.0.0,>=0.11.4 Using cached tomlkit-0.11.8-py3-none-any.whl (35 kB) Collecting poetry-core==1.6.1 Using cached poetry_core-1.6.1-py3-none-any.whl (450 kB) Collecting poetry-plugin-export<2.0.0,>=1.4.0 Using cached poetry_plugin_export-1.4.0-py3-none-any.whl (10 kB) Collecting platformdirs<4.0.0,>=3.0.0 Using cached platformdirs-3.8.0-py3-none-any.whl (16 kB) Collecting msgpack>=0.5.2 Downloading msgpack-1.0.5-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (316 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 316.8/316.8 kB 19.1 MB/s eta 0:00:00 Collecting 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certifi>=2017.4.17 Using cached certifi-2023.5.7-py3-none-any.whl (156 kB) Collecting charset-normalizer<4,>=2 Downloading charset_normalizer-3.1.0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (199 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 199.3/199.3 kB 11.0 MB/s eta 0:00:00 Collecting idna<4,>=2.5 Using cached idna-3.4-py3-none-any.whl (61 kB) Collecting distlib<1,>=0.3.6 Using cached distlib-0.3.6-py2.py3-none-any.whl (468 kB) Collecting zipp>=0.5 Using cached zipp-3.15.0-py3-none-any.whl (6.8 kB) Collecting cryptography>=2.0 Using cached cryptography-41.0.1-cp37-abi3-manylinux_2_28_x86_64.whl (4.3 MB) Collecting more-itertools Using cached more_itertools-9.1.0-py3-none-any.whl (54 kB) Collecting cffi>=1.12 Downloading cffi-1.15.1-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (441 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 441.8/441.8 kB 20.9 MB/s eta 0:00:00 Collecting pycparser Using cached pycparser-2.21-py2.py3-none-any.whl (118 kB) Installing collected packages: webencodings, trove-classifiers, ptyprocess, msgpack, lockfile, distlib, zipp, urllib3, tomlkit, tomli, six, shellingham, rapidfuzz, pyrsistent, pycparser, poetry-core, platformdirs, pkginfo, pip, pexpect, packaging, more-itertools, jeepney, installer, idna, filelock, crashtest, charset-normalizer, certifi, attrs, virtualenv, requests, pyproject-hooks, jsonschema, jaraco.classes, importlib-metadata, html5lib, dulwich, cleo, cffi, requests-toolbelt, cryptography, cachecontrol, build, SecretStorage, keyring, poetry-plugin-export, poetry Attempting uninstall: pip Found existing installation: pip 23.0.1 Uninstalling pip-23.0.1: Successfully uninstalled pip-23.0.1 Successfully installed SecretStorage-3.3.3 attrs-23.1.0 build-0.10.0 cachecontrol-0.12.14 certifi-2023.5.7 cffi-1.15.1 charset-normalizer-3.1.0 cleo-2.0.1 crashtest-0.4.1 cryptography-41.0.1 distlib-0.3.6 dulwich-0.21.5 filelock-3.12.2 html5lib-1.1 idna-3.4 importlib-metadata-6.7.0 installer-0.7.0 jaraco.classes-3.2.3 jeepney-0.8.0 jsonschema-4.17.3 keyring-23.13.1 lockfile-0.12.2 more-itertools-9.1.0 msgpack-1.0.5 packaging-23.1 pexpect-4.8.0 pip-23.1.2 pkginfo-1.9.6 platformdirs-3.8.0 poetry-1.5.1 poetry-core-1.6.1 poetry-plugin-export-1.4.0 ptyprocess-0.7.0 pycparser-2.21 pyproject-hooks-1.0.0 pyrsistent-0.19.3 rapidfuzz-2.15.1 requests-2.31.0 requests-toolbelt-1.0.0 shellingham-1.5.0.post1 six-1.16.0 tomli-2.0.1 tomlkit-0.11.8 trove-classifiers-2023.5.24 urllib3-1.26.16 virtualenv-20.23.1 webencodings-0.5.1 zipp-3.15.0 WARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv Installing packages with poetry... Skipping virtualenv creation, as specified in config file. Using version ^0.15.1 for arviz Using version ^4.12.2 for beautifulsoup4 Using version ^23.3.0 for black Using version ^0.29.35 for cython Using version ^2.11.1 for dash Using version ^2023.6.1 for dask Using version ^0.12.2 for flair Using version ^6.0.0 for flake8 Using version ^0.14.0 for folium Using version ^4.3.1 for gensim Using version ^0.13.2 for geopandas Using version ^0.26.2 for gym Using version ^1.1 for html5lib Using version ^6.23.3 for ipykernel Using version ^3.3.5 for lightgbm Using version ^4.9.2 for lxml Using version ^3.7.1 for matplotlib Using version ^3.8.1 for nltk Using version ^0.57.1 for numba Using version ^2.0.3 for pandas Using version ^0.7.3 for pandasql Using version ^0.3.0 for pathos Using version ^1.29.8 for pg8000 Using version ^9.5.0 for pillow Using version ^5.15.0 for plotly Using version ^1.1.4 for prophet Using version ^2.9.6 for psycopg2 Using version ^1.4.2 for pydot Using version ^2.1.4 for pygrib Using version ^2.17.4 for pylint Using version ^5.5.0 for pymc Using version ^4.0.39 for pyodbc Using version ^3.6.0 for pyproj Using version ^2.3.1 for pyshp Using version ^7.4.0 for pytest Using version ^6.0 for pyyaml Using version ^2023.6.3 for regex Using version ^2.31.0 for requests Using version ^2.3.5 for safety Using version ^1.3.0 for scikit-learn Using version ^1.11.1 for scipy Using version ^0.12.2 for seaborn Using version ^0.1.2 for spacy-langdetect Using version ^3.5.4 for spacy Using version ^7.0.1 for sphinx Using version ^2.0.17 for sqlalchemy Using version ^1.12 for sympy Using version ^3.8.0 for tables Using version ^2.12.0 for tensorflow Using version ^8.1.10 for thinc Using version ^1.9.2 for wordcloud Using version ^1.7.6 for xgboost Using version ^2.0.1 for xlrd Updating dependencies Resolving dependencies... Package operations: 255 installs, 9 updates, 0 removals • Installing frozenlist (1.3.3) • Installing multidict (6.0.4) • Installing multipledispatch (1.0.0) • Installing toolz (0.12.0) • Installing aiosignal (1.3.1) • Installing async-timeout (4.0.2) • Installing logical-unification (0.4.6) • Installing mpmath (1.3.0) • Installing numpy (1.23.5) • Installing python-dateutil (2.8.2) • Installing pyasn1 (0.5.0) • Installing markupsafe (2.1.3) • Installing pytz (2023.3) • Installing tzdata (2023.3) • Installing yarl (1.9.2) • Installing aiohttp (3.8.4) • Installing cachetools (5.3.1) • Installing catalogue (2.0.8) • Installing cons (0.4.6) • Installing dill (0.3.6) • Installing fsspec (2023.6.0) • Installing jinja2 (3.1.2) • Installing jmespath (1.0.1) • Installing networkx (3.1) • Updating packaging (23.1 -> 23.0) • Installing pandas (2.0.3) • Installing oauthlib (3.2.2) • Installing pyasn1-modules (0.3.0) • Installing pyyaml (6.0) • Installing rsa (4.9) • Installing sympy (1.12) • Installing tqdm (4.65.0) • Installing typing-extensions (4.7.0) • Installing asttokens (2.2.1) • Installing botocore (1.29.164) • Installing click (8.1.3) • Installing cycler (0.11.0) • Installing contourpy (1.1.0) • Installing etuples (0.3.9) • Installing cymem (2.0.7) • Installing executing (1.2.0) • Installing fonttools (4.40.0) • Installing google-auth (2.21.0) • Installing h5py (3.9.0) • Installing huggingface-hub (0.15.1) • Installing kiwisolver (1.4.4) • Installing multiprocess (0.70.14) • Installing murmurhash (1.0.9) • Installing parso (0.8.3) • Installing pillow (9.5.0) • Updating platformdirs (3.8.0 -> 2.6.2) • Installing pure-eval (0.2.2) • Installing pyarrow (12.0.1) • Installing pydantic (1.10.10) • Installing pyparsing (3.1.0) • Installing pysocks (1.7.1) • Installing regex (2023.6.3) • Installing requests-oauthlib (1.3.1) • Installing scipy (1.11.1) • Installing smart-open (6.3.0) • Installing soupsieve (2.4.1) • Installing srsly (2.4.6) • Installing tokenizers (0.12.1) • Installing torch (2.0.1) • Installing traitlets (5.9.0) • Installing wcwidth (0.2.6) • Installing xarray (2023.6.0) • Installing xxhash (3.2.0) • Installing absl-py (1.4.0) • Installing asn1crypto (1.5.1) • Installing backcall (0.2.0) • Installing beautifulsoup4 (4.12.2) • Installing blis (0.7.9) • Installing click-plugins (1.1.1) • Installing cloudpickle (2.2.1) • Installing cligj (0.7.2) • Installing confection (0.1.0) • Installing datasets (2.13.1) • Installing decorator (5.1.1) • Installing ephem (4.1.4) • Installing exceptiongroup (1.1.1) • Installing future (0.18.3) • Installing gensim (4.3.1) • Installing google-auth-oauthlib (1.0.0) • Installing greenlet (2.0.2) • Installing grpcio (1.56.0) • Installing h5netcdf (1.2.0) • Installing iniconfig (2.0.0) • Installing itsdangerous (2.1.2) • Installing jedi (0.18.2) • Installing joblib (1.3.1) • Installing jupyter-core (5.3.1) • Installing lazy-object-proxy (1.9.0) • Installing locket (1.0.0) • Installing markdown (3.4.3) • Installing matplotlib (3.7.1) • Installing matplotlib-inline (0.1.6) • Installing minikanren (1.0.3) • Installing ml-dtypes (0.2.0) • Installing opt-einsum (3.3.0) • Installing pickleshare (0.7.5) • Installing pluggy (1.2.0) • Updating poetry-core (1.6.1 -> 1.4.0) • Installing preshed (3.0.8) • Installing prompt-toolkit (3.0.38) • Installing protobuf (4.23.3) • Installing py4j (0.10.9.7) • Installing pygments (2.15.1) • Installing pymeeus (0.5.12) • Installing pyzmq (25.1.0) • Installing ruamel-yaml-clib (0.2.7) • Installing s3transfer (0.6.1) • Installing sentencepiece (0.1.99) • Updating setuptools (65.5.0 -> 68.0.0) • Installing stack-data (0.6.2) • Installing tenacity (8.2.2) • Installing tensorboard-data-server (0.7.1) • Installing threadpoolctl (3.1.0) • Installing tornado (6.3.2) • Installing transformers (4.19.2) • Installing typer (0.9.0) • Installing wasabi (1.1.2) • Installing werkzeug (2.2.3) • Installing wheel (0.40.0) • Installing wrapt (1.14.1) • Installing xarray-einstats (0.5.1) • Installing alabaster (0.7.13) • Installing ansi2html (1.8.0) • Installing arviz (0.15.1) • Installing astroid (2.15.5) • Installing babel (2.12.1) • Installing astunparse (1.6.3) • Installing blosc2 (2.0.0) • Installing bpemb (0.3.4) • Installing branca (0.6.0) • Installing boto3 (1.26.164) • Installing cmdstanpy (1.1.0) • Installing comm (0.1.3) • Installing conllu (4.5.3) • Installing convertdate (2.4.0) • Installing cython (0.29.35) • Installing dash-core-components (2.0.0) • Installing dash-html-components (2.0.0) • Installing dash-table (5.0.0) • Installing debugpy (1.6.7) • Installing deprecated (1.2.14) • Installing docutils (0.20.1) • Installing dparse (0.6.3) • Updating dulwich (0.21.5 -> 0.20.50) • Installing fastprogress (1.0.3) • Installing fiona (1.9.4.post1) • Installing flask (2.2.5) • Installing flatbuffers (23.5.26) • Installing ftfy (6.1.1) • Installing gast (0.4.0) • Installing gdown (4.4.0) • Installing google-pasta (0.2.0) • Installing gym-notices (0.0.8) • Installing holidays (0.27.1) • Installing hyperopt (0.2.7) • Installing imageio (2.31.1) • Installing imagesize (1.4.1) • Installing importlib-resources (5.12.0) • Installing ipython (8.14.0) • Installing isort (5.12.0) • Installing janome (0.4.2) • Installing jax (0.4.13) • Installing jupyter-client (8.3.0) • Installing keras (2.12.0) • Installing langcodes (3.3.0) • Installing langdetect (1.0.7) • Installing lazy-loader (0.2) • Installing libclang (16.0.0) • Installing llvmlite (0.40.1) • Installing lunarcalendar (0.0.9) • Installing lxml (4.9.2) • Installing marshmallow (3.19.0) • Installing mccabe (0.7.0) • Installing mpld3 (0.3) • Installing mypy-extensions (1.0.0) • Installing nest-asyncio (1.5.6) • Installing numexpr (2.8.4) • Installing partd (1.4.0) • Installing pathspec (0.11.1) • Installing pathy (0.10.2) • Installing patsy (0.5.3) • Installing plotly (5.15.0) • Updating poetry-plugin-export (1.4.0 -> 1.3.1) • Installing pox (0.3.2) • Installing ppft (1.7.6.6) • Installing pptree (3.1) • Installing psutil (5.9.5) • Installing py-cpuinfo (9.0.0) • Installing pycodestyle (2.10.0) • Installing pyflakes (3.0.1) • Installing pyproj (3.6.0) • Installing pytensor (2.12.3) • Installing pytest (7.4.0) • Installing pytorch-revgrad (0.2.0) • Installing pywavelets (1.4.1) • Updating requests-toolbelt (1.0.0 -> 0.10.1) • Installing retrying (1.3.4) • Installing ruamel-yaml (0.17.32) • Installing scikit-learn (1.3.0) • Installing scramp (1.4.4) • Installing segtok (1.5.11) • Installing shapely (2.0.1) • Installing snowballstemmer (2.2.0) • Installing spacy-legacy (3.0.12) • Installing spacy-loggers (1.0.4) • Installing sphinxcontrib-applehelp (1.0.4) • Installing sphinxcontrib-devhelp (1.0.2) • Installing sphinxcontrib-htmlhelp (2.0.1) • Installing sphinxcontrib-jsmath (1.0.1) • Installing sphinxcontrib-qthelp (1.0.3) • Installing sphinxcontrib-serializinghtml (1.1.5) • Installing sqlalchemy (2.0.17) • Installing sqlitedict (2.1.0) • Installing tabulate (0.9.0) • Installing tensorboard (2.12.3) • Installing tensorflow-estimator (2.12.0) • Installing tensorflow-io-gcs-filesystem (0.32.0) • Installing termcolor (2.3.0) • Installing thinc (8.1.10) • Installing tifffile (2023.4.12) • Installing transformer-smaller-training-vocab (0.2.4) • Updating virtualenv (20.23.1 -> 20.21.1) • Installing wikipedia-api (0.6.0) • Installing black (23.3.0) • Installing dash (2.11.1) • Installing dask (2023.6.1) • Installing flair (0.12.2) • Installing flake8 (6.0.0) • Installing folium (0.14.0) • Installing geopandas (0.13.2) • Installing gym (0.26.2) • Installing ipykernel (6.23.3) • Installing lightgbm (3.3.5) • Installing nltk (3.8.1) • Installing numba (0.57.1) • Installing pandasql (0.7.3) • Installing pathos (0.3.0) • Installing pg8000 (1.29.8) • Updating poetry (1.5.1 -> 1.3.2) • Installing prophet (1.1.4) • Installing psycopg2 (2.9.6) • Installing pydot (1.4.2) • Installing pygrib (2.1.4) • Installing pylint (2.17.4) • Installing pymc (5.5.0) • Installing pyodbc (4.0.39) • Installing pyshp (2.3.1) • Installing safety (2.4.0b1) • Installing scikit-image (0.21.0) • Installing seaborn (0.12.2) • Installing spacy (3.5.4) • Installing spacy-langdetect (0.1.2) • Installing sphinx (7.0.1) • Installing statsmodels (0.14.0) • Installing tables (3.8.0) • Installing tensorflow (2.12.0) • Installing wordcloud (1.9.2) • Installing xgboost (1.7.6) ImportError cannot import name 'Python2Supports' from 'virtualenv.create.describe' (/opt/pyenv/versions/3.10.12/lib/python3.10/site-packages/virtualenv/create/describe.py) at /opt/pyenv/versions/3.10.12/lib/python3.10/site-packages/virtualenv/create/via_global_ref/builtin/python2/python2.py:6 in 2│ import json 3│ import os 4│ from pathlib import Path 5│ → 6│ from virtualenv.create.describe import Python2Supports 7│ from virtualenv.create.via_global_ref.builtin.ref import PathRefToDest 8│ from virtualenv.info import IS_ZIPAPP 9│ from virtualenv.util.zipapp import read as read_from_zipapp 10│ • Installing xlrd (2.0.1) Could not install Python 3.10.12! Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:final' at Fri, 30 Jun 2023 14:57:24 +0000. Up 2630.24 seconds. 2023-06-30 15:58:05,163 - cc_scripts_user.py[WARNING]: Failed to run module scripts-user (scripts in /var/lib/cloud/instance/scripts) 2023-06-30 15:58:05,164 - util.py[WARNING]: Running module scripts-user () failed System setup through cloud-init is finished. Configuration took 6276.55 seconds Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'init-local' at Mon, 03 Jul 2023 08:34:15 +0000. Up 7.33 seconds. Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'init' at Mon, 03 Jul 2023 08:34:18 +0000. Up 10.67 seconds. ci-info: ++++++++++++++++++++++++++++++++++++++Net device info+++++++++++++++++++++++++++++++++++++++ ci-info: +--------+------+-----------------------------+---------------+--------+-------------------+ ci-info: | Device | Up | Address | Mask | Scope | Hw-Address | ci-info: +--------+------+-----------------------------+---------------+--------+-------------------+ ci-info: | eth0 | True | 10.48.0.4 | 255.255.255.0 | global | 60:45:bd:d1:0d:c0 | ci-info: | eth0 | True | fe80::6245:bdff:fed1:dc0/64 | . | link | 60:45:bd:d1:0d:c0 | ci-info: | lo | True | 127.0.0.1 | 255.0.0.0 | host | . | ci-info: | lo | True | ::1/128 | . | host | . | ci-info: +--------+------+-----------------------------+---------------+--------+-------------------+ ci-info: +++++++++++++++++++++++++++++++Route IPv4 info+++++++++++++++++++++++++++++++ ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: | Route | Destination | Gateway | Genmask | Interface | Flags | ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: | 0 | 0.0.0.0 | 10.48.0.1 | 0.0.0.0 | eth0 | UG | ci-info: | 1 | 10.48.0.0 | 0.0.0.0 | 255.255.255.0 | eth0 | U | ci-info: | 2 | 168.63.129.16 | 10.48.0.1 | 255.255.255.255 | eth0 | UGH | ci-info: | 3 | 169.254.169.254 | 10.48.0.1 | 255.255.255.255 | eth0 | UGH | ci-info: +-------+-----------------+-----------+-----------------+-----------+-------+ ci-info: +++++++++++++++++++Route IPv6 info+++++++++++++++++++ ci-info: +-------+-------------+---------+-----------+-------+ ci-info: | Route | Destination | Gateway | Interface | Flags | ci-info: +-------+-------------+---------+-----------+-------+ ci-info: | 1 | fe80::/64 | :: | eth0 | U | ci-info: | 3 | local | :: | eth0 | U | ci-info: | 4 | multicast | :: | eth0 | U | ci-info: +-------+-------------+---------+-----------+-------+ Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:config' at Mon, 03 Jul 2023 08:34:29 +0000. Up 21.36 seconds. Cloud-init v. 23.1.2-0ubuntu0~20.04.2 running 'modules:final' at Mon, 03 Jul 2023 08:34:30 +0000. Up 22.16 seconds. System setup through cloud-init is finished. Configuration took 22.77 seconds ```