Cannot Open Extension Control File

[Smtgr14]

Orange version

V 3.4.0 (git revision 4438eb2)

Expected behavior

Adding and entering connection information to SQL Table widget shoul move to the next step.

Actual behavior

Error is thrown: could not open extension control file "/usr/share/postgresql/9.6/etx...

Steps to reproduce the behavior

1) Install a fresh copy of Orange (and python) on Windows 7 or Mac OS Sierra. 2) Run Orange3 3) Add SQL Table widget to canvas 4) Fill out all fields. 5) Error appears.

Additional info (worksheets, data, screenshots, ...)

[azrulhaifan]

@Smtgr14 i have mac os sierra too, and i have issue in sql table too. but my error is "Please install a backend to use this widget", even that i installed psycopg2 the error is still appear.

can you help me ? sorry for bad english

[lexykassan]

Similar issue here. Orange 3.4.1 installed via Anaconda 1.6.3

psycopg2 is installed in the environment and seems to be running correctly. When using the SQL Table widget and entering credentials for a Google Cloud hosted PostgreSQL server I get the following error:

could not open extension control file "/opt/bitnami/postgresql/share/extension/quantile.control": no such file or directory

Not even sure what this is meant to be or is looking for. Any help would be appreciated.

[ajdapretnar]

Possible duplicate of #2271. Could someone confirm it's the quantile issue?

[dirtyworks]

There is no way to know if it is a quantile issue on Windows as the error message does not fit in the GUI.

It seems like the default connection assumes that the PostgreSQL database is local with the application demanding server extensions. That simply isn't possible in my environment for very many reasons including a client should never try installing extensions on a server.. I can't be the only one trying to run exclusively as a client.

[Smtgr14]

+1

[apetrov]

same on Orange3.7 + OSX 10.12.3

[Quazer]

same on Orange3.4.1 (Anaconda3-5.0.1-Windows-x86_64), PostgreSQL 9.6.6

[vpejovic]

Same issue with version 3.9.0.dev0 (slightly different error though - could not open extension control file "/usr/share/postgresql/9.4/extension/t...[can't see the rest]")

[ivek1312]

On gentoo linux and version 3.9.0.dev0 i get: could not open extension control file "/usr/share/postgresql/9.4/extension/tsm_system_time.control":No such file or directory

Postgresql version is 10.1 installed in /usr/share/postgresql. Psycopg is 2.7.3.1.

[shahrzaadpeyman]

Hi everybody! I had the same problem:

could not open extension control file "/usr/local/share/postgresql/extension/quantile.control": no such file or directory

on:

# MacOS
$ sw_vers
ProductName:    Mac OS X
ProductVersion: 10.13.2
BuildVersion:   17C88

# PostgreSQL 10(Brewed)
$ psql --version
psql (PostgreSQL) 10.1

# Python3(Brewed)
$ python3 --version
Python 3.6.4

# Orange3(Using Pip3 of Brew)
$ pip3 --version
pip 9.0.1 from /usr/local/lib/python3.6/site-packages (python 3.6)

$ pip3 show orange3
Name: Orange3
Version: 3.8.0
Summary: Orange, a component-based data mining framework.
Home-page: http://orange.biolab.si/
Author: Bioinformatics Laboratory, FRI UL
Author-email: info@biolab.si
License: GPLv3+
Location: /usr/local/lib/python3.6/site-packages
Requires: scikit-learn, setuptools, bottleneck, keyrings.alt, pip, dill, chardet, serverfiles, scipy, CommonMark, joblib, keyring, xlrd, pyqtgraph, AnyQt, numpy, docutils

$ pip3 show psycopg2
Name: psycopg2
Version: 2.7.3.2
Summary: psycopg2 - Python-PostgreSQL Database Adapter
Home-page: http://initd.org/psycopg/
Author: Federico Di Gregorio
Author-email: fog@initd.org
License: LGPL with exceptions or ZPL
Location: /usr/local/lib/python3.6/site-packages
Requires:

How to solve it:

Install Quantile using PGXN:

sudo easy_install pgxnclient
pgxn install quantile

This will install the missing quantile.control at /usr/local/share/postgresql/extension/quantile.control.

Run Orange

Just run orange now:

orange-canvas

Finally Add SQL Table widget to canvas and Enjoy

[marcot21]

Install Quantile using PGXN: sudo easy_install pgxnclient pgxn install quantile

Trying to install Quantile to solve issue:
could not open extension control file "/usr/share/postgresql/9.6/etx...

Using MAC OS High Sierra 10.13.3. Postgre 9.6 (Pgadmin) Orange 3.1 (anaconda)

When launch: pgxn install quantile

got following error: '''INFO: best version: quantile 1.1.5 INFO: saving /tmp/tmp7qgsiw6v/quantile-1.1.5.zip INFO: unpacking: /tmp/tmp7qgsiw6v/quantile-1.1.5.zip INFO: building extension gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.8.sdk -mmacosx-version-min=10.7 -arch i386 -arch x86_64 -O2 -I. -I./ -I/Library/PostgreSQL/9.6/include/postgresql/server -I/Library/PostgreSQL/9.6/include/postgresql/internal -I/opt/local/20151229/include/libxml2 -I/opt/local/Current/include/libxml2 -I/opt/local/Current/include -c -o src/quantile.o src/quantile.c clang: warning: no such sysroot directory: '/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.8.sdk' [-Wmissing-sysroot] clang: warning: no such sysroot directory: '/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.8.sdk' [-Wmissing-sysroot] src/quantile.c:7:10: fatal error: 'stdio.h' file not found

include

     ^~~~~~~~~

1 error generated. make: *** [src/quantile.o] Error 1 ERROR: command returned 2: make PG_CONFIG=/Library/PostgreSQL/9.6/bin/pg_config all''

[Kegerer]

Hi All,

I'm new to this, but am having the same/similar issues as above.

Orange version: 3.13.0 Anaconda 3 PostgreSQL 10 - pgAdmin4 Add-on: pyscopg2 successfully added

Expected behavior: After correctly adding pyscopg2 in the Orange Add-ons, connection to pgSQL database should be possible.

Actual behavior:

Scenario 1: Fill in the SQL Table connection information completely produces the known and previously described "extension control file" error message. For me it looks like this:

Scenario 2: Fill in the SQL Table connection information all fields except "username", and the connection to the pgSQL database seems to work. The only problem is, when connecting the SQL Table Widget to the Data Table Widget, the line is dotted (indicating that the connection or reading of data from the SQL table is not working (?)). See here:

Steps to reproduce behavior:

1. Install a fresh copy of Orange
2. Run Orange3
3. Add SQL Table widget to canvas having loaded the Add-on pyscopg2
4. Fill out all fields.
5. Error appears (paritally in SQL table: see first image above)

My thoughts as an inexperienced sql user: Scenario 2 seems some how wrong because one would expect being able to select a table from the pgSQL database server (similar to how one ones a file on the orange canvas), but this is not possible.

Scenario 1: Following shahrzadpeyman's comment:

How to solve it: Install Quantile using PGXN:

sudo easy_install pgxnclient
pgxn install quantile

This will install the missing quantile.control at /usr/local/share/postgresql/extension/quantile.control. Run Orange

Just run orange now:

orange-canvas

Finally Add SQL Table widget to canvas and Enjoy

... I think I need to install Quantile using PGXN. At this point, I am lost due to my inexperience. Looking at pg's description of what a PGXN is https://wiki.postgresql.org/wiki/PGXN , I'm not certain if I have this and if not, how I activate or install it. Furthermore, looking at https://github.com/tvondra/quantile, how do I know I am using the pgxn client?

Where/how do I complete the commands: sudo easy_install pgxnclient pgxn install quantile ?

Or maybe I'm just missing something. Your help is appreciated!

[AlexandreVR]

Hello all,

I am having the same problem. I already installed psycopg2 but now I cant open the sql table in Orange, because it presents the same error: "Could not open extension control file (...)quantile.control"

I am using a windows 10 machine, and it is being very hard to install quantile. Right now I already tried to install pgxn client, in the script folder inside orange folder, using pip install pgxnclient, but then when I do pgxnclient it presents: "File "c:\users\maria sousa\appdata\local\orange\lib\site-packages\pgxnclient\cli.py", line 114, in command_dispatch os.execv(argv[0], argv)".

I also tried to just install quantile, with pip install quantile, but the erros mantains.

I already tried lots of things to try to install quantile. The thing is, I really need to use this tool for my work.

Your help would be very much appreciated!

Thank you very much.

[GWevroy]

Hi, same issue here, except I am running on Windows (only because I have to as that's what we use at work...) I can confirm that this is the same problem as the missing quantile control, except mine keeps telling me I'm missing the tsm_system_time.control file (visible when hovering the mouse over the error). There just seems to be no way to install this extension, unless you are running Linux.

So what's the answer? How do you install these missing controls/extensions under a Windows 7 (client, with Windows 2012 Server running Postgres database)? We are using Postgres version 9.2.9 which, while it's old, seems to be no worse off than the latest Postgres version 10 when it comes to this problem.

Thanks!

[AlexandreVR]

Astaric thank you, but that link you posted does say that you need to install quantile but it does not gives instructions about how to do it, and for me, that is the real problem.

[astaric]

The wiki page linked to the page with instructions for installation of the quantile extension, but they were buried at the bottom of the site. I have added the commands needed to install the extension to the wiki page.

There is also an open pull request - https://github.com/biolab/orange3/pull/3113 - which should allow you to use the database even without extensions. If anyone is able to try it out, let us know what works/does not work in PR comments.

[AlexandreVR]

Thank you for your answers astaric. However I am still having some problems.

I could not install quantile using pgxnclient, because it is presenting the following error when I use pgxn: (I tried here with the orange command prompt put it presents the same error in the windows command prompt)

Therefore, I was trying to use the make install, but I dont know where to place (in what folder) the downloaded file from the quantile website, in order to use the make install command. I tried here to place it in the Scripts folder, in the orange folder, and use the make install command, but I got the following error: (PS: There is one part in portuguese, which is without rule to process the target "install". Stop. Probably I am not placing the quantile folder in the right place.

I didn't tried yet to use the database without extensions because I wanted to try these two steps first.

Thank you for your patience.

[ajdapretnar]

Fixed in #3113.