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conda-forge / root-feedstock

A conda-smithy repository for root.
BSD 3-Clause "New" or "Revised" License
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root not working in macOS 11.6 #149

Open mbomben opened 3 years ago

mbomben commented 3 years ago

Issue:

Dear support staff, I am using miniconda in macOS 11.6. I have installed root using these instructions: https://root.cern/install/#conda When I launch ROOT I get these error messages (return code: 6) and same happens for python:

$ root
input_line_1:1:2: error: module 'Darwin' uses additional module map '/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/machine.modulemap' used when the module was built

include

^ input_line_1:1:2: note: imported by module 'std' in '/Users/mbomben/miniconda3/envs/myroot/lib/std.pcm' Warning in cling::IncrementalParser::CheckABICompatibility(): Failed to extract C++ standard library version. Warning in cling::IncrementalParser::CheckABICompatibility(): Possible C++ standard library mismatch, compiled with _LIBCPP_ABI_VERSION '1' Extraction of runtime standard library version was: '' input_line_2:1:2: fatal error: module file '/Users/mbomben/miniconda3/envs/myroot/lib/std.pcm' is out of date and needs to be rebuilt

include "cling/Interpreter/RuntimeUniverse.h"

^ input_line_2:1:2: note: imported by module 'Cling_Runtime_Extra' in '/Users/mbomben/miniconda3/envs/myroot/lib/Cling_Runtime_Extra.pcm' input_line_2:1:2: note: imported by module 'Cling_Runtime' in '/Users/mbomben/miniconda3/envs/myroot/lib/Cling_Runtime.pcm' Replaced symbol atexit cannot be found in JIT! Replaced symbol at_quick_exit cannot be found in JIT! <<< cling interactive line includer >>>: fatal error: module file '/Users/mbomben/miniconda3/envs/myroot/lib/Darwin.pcm' is out of date and needs to be rebuilt Failed to load module Darwin Failed to load module std Failed to load module _Builtin_intrinsics Failed to load module ROOT_Foundation_C Failed to load module ROOT_Config Failed to load module ROOT_Rtypes Failed to load module ROOT_Foundation_Stage1_NoRTTI Failed to load module Core Failed to load module Rint Failed to load module RIO Failed to load module MathCore Failed to load module Hist Failed to load module Darwin Failed to load module Unfold Failed to load module Imt Failed to load module HistPainter Failed to load module PyMVA Failed to load module RHTTPSniff Failed to load module RDAVIX Failed to load module RHTTP Failed to load module FitPanel Failed to load module ROOTVecOps Failed to load module ProofDraw Failed to load module ROOTBrowsable Failed to load module Quadp Failed to load module ROOT_Foundation_Stage1_NoRTTI Failed to load module GeomPainter Failed to load module Genetic Failed to load module Eve Failed to load module TreeViewer Failed to load module Physics Failed to load module ROOTNTuple Failed to load module EG Failed to load module Tree Failed to load module HistFactory Failed to load module Spectrum Failed to load module Matrix Failed to load module Html Failed to load module Hist Failed to load module GuiHtml Failed to load module _Builtin_intrinsics Failed to load module Gpad Failed to load module TMVAGui Failed to load module ROOTEve Failed to load module Fumili Failed to load module Net Failed to load module RGL Failed to load module Geom Failed to load module Postscript Failed to load module GCocoa Failed to load module ROOTGpadv7 Failed to load module RCsg Failed to load module Cling_Runtime Failed to load module SPlot Failed to load module EGPythia8 Failed to load module GeomBuilder Failed to load module RooFit Failed to load module ROOT_Config Failed to load module RooFitMore Failed to load module Rint Failed to load module XMLParser Failed to load module MultiProc Failed to load module RooStats Failed to load module Proof Failed to load module FITSIO Failed to load module Ged Failed to load module Recorder Failed to load module FFTW Failed to load module GuiBld Failed to load module Vc Failed to load module ROOTWebDisplay Failed to load module RooFitCore Failed to load module Gui Failed to load module SQLIO Failed to load module XMLIO Failed to load module ROOT_Rtypes Failed to load module std Failed to load module ROOTHistDraw Failed to load module RIO Failed to load module ProofPlayer Failed to load module ASImage Failed to load module ROOT_Foundation_C Failed to load module MathMore Failed to load module Foam Failed to load module RSQLite Failed to load module SpectrumPainter Failed to load module Minuit2 Failed to load module Core Failed to load module MLP Failed to load module ROOTDataFrame Failed to load module GenVector Failed to load module NetxNG Failed to load module ROOTBrowserv7 Failed to load module Minuit Failed to load module RootAuth Failed to load module Graf3d Failed to load module TMVA Failed to load module ASImageGui Failed to load module Graf Failed to load module Gdml Failed to load module ProofBench Failed to load module Cling_Runtime_Extra Failed to load module MathCore Failed to load module Gviz3d Failed to load module WebGui6 Failed to load module ROOTTPython Failed to load module ROOTHist Failed to load module TreePlayer Failed to load module ROOTGraphicsPrimitives Failed to load module Gviz Failed to load module ROOTFitPanelv7 Failed to load module Smatrix Failed to load module SessionViewer Failed to load module Thread Assertion failed: (clingInterp.getMacro("gROOT") && "Couldn't load gROOT macro?"), function RegisterCxxModules, file /Users/runner/miniforge3/conda-bld/root_base_1630711535126/work/root-source/core/metacling/src/TCling.cxx, line 1313.


Environment (conda list):

``` $ conda list # packages in environment at /Users/mbomben/miniconda3/envs/myroot: # # Name Version Build Channel afterimage 1.21 h4dd67e6_1003 conda-forge appnope 0.1.2 py39h6e9494a_2 conda-forge argon2-cffi 21.1.0 py39h89e85a6_2 conda-forge async_generator 1.10 py_0 conda-forge atk-1.0 2.36.0 he69c4ee_4 conda-forge attrs 21.2.0 pyhd8ed1ab_0 conda-forge backcall 0.2.0 pyh9f0ad1d_0 conda-forge backports 1.0 py_2 conda-forge backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge bleach 4.1.0 pyhd8ed1ab_0 conda-forge bzip2 1.0.8 h0d85af4_4 conda-forge c-ares 1.18.1 h0d85af4_0 conda-forge c-compiler 1.3.0 h0d85af4_0 conda-forge ca-certificates 2021.10.8 h033912b_0 conda-forge cairo 1.16.0 he43a7df_1008 conda-forge cctools 949.0.1 hd9211c8_21 conda-forge cctools_osx-64 949.0.1 h6407bdd_21 conda-forge cffi 1.15.0 py39he338e87_0 conda-forge cfitsio 3.470 h01dc385_7 conda-forge clang 11.1.0 h694c41f_1 conda-forge clang-11 11.1.0 default_he082bbe_1 conda-forge clang_osx-64 11.1.0 hb91bd55_4 conda-forge clangxx 11.1.0 default_he082bbe_1 conda-forge clangxx_osx-64 11.1.0 h7e1b574_4 conda-forge colorama 0.4.4 pyh9f0ad1d_0 conda-forge compiler-rt 11.1.0 h654b07c_0 conda-forge compiler-rt_osx-64 11.1.0 h8c5fa43_0 conda-forge compilers 1.3.0 h694c41f_0 conda-forge cxx-compiler 1.3.0 h940c156_0 conda-forge davix 0.7.6 h61356a0_0 conda-forge debugpy 1.5.1 py39h9fcab8e_0 conda-forge decorator 5.1.0 pyhd8ed1ab_0 conda-forge defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge entrypoints 0.3 pyhd8ed1ab_1003 conda-forge expat 2.4.1 he49afe7_0 conda-forge fftw 3.3.10 nompi_h4024a70_101 conda-forge font-ttf-dejavu-sans-mono 2.37 hab24e00_0 conda-forge font-ttf-inconsolata 3.000 h77eed37_0 conda-forge font-ttf-source-code-pro 2.038 h77eed37_0 conda-forge font-ttf-ubuntu 0.83 hab24e00_0 conda-forge fontconfig 2.13.1 h10f422b_1005 conda-forge fonts-conda-ecosystem 1 0 conda-forge fonts-conda-forge 1 0 conda-forge fortran-compiler 1.3.0 h6818c3e_0 conda-forge freetype 2.10.4 h4cff582_1 conda-forge fribidi 1.0.10 hbcb3906_0 conda-forge ftgl 2.4.0 h508da5b_0 conda-forge gdk-pixbuf 2.42.6 h2e6141f_0 conda-forge gettext 0.19.8.1 hd1a6beb_1008 conda-forge gfortran 9.3.0 h768ea0c_14 conda-forge gfortran_impl_osx-64 9.3.0 h9cc0e5e_23 conda-forge gfortran_osx-64 9.3.0 h18f7dce_14 conda-forge giflib 5.2.1 hbcb3906_2 conda-forge gl2ps 1.4.2 h4cff582_0 conda-forge glew 2.1.0 h046ec9c_2 conda-forge gmp 6.2.1 h2e338ed_0 conda-forge graphite2 1.3.13 h2e338ed_1001 conda-forge graphviz 2.49.3 h77de9ca_0 conda-forge gsl 2.7 h93259b0_0 conda-forge gtk2 2.24.33 h675d97a_1 conda-forge gts 0.7.6 hccb3bdf_2 conda-forge harfbuzz 3.1.0 h159f659_0 conda-forge icu 68.2 he49afe7_0 conda-forge importlib-metadata 4.8.1 py39h6e9494a_1 conda-forge importlib_resources 5.4.0 pyhd8ed1ab_0 conda-forge ipykernel 6.4.2 py39h71a6800_0 conda-forge ipyparallel 7.1.0 pyhd8ed1ab_0 conda-forge ipython 7.29.0 py39h71a6800_1 conda-forge ipython_genutils 0.2.0 py_1 conda-forge isl 0.22.1 hb1e8313_2 conda-forge jbig 2.1 h0d85af4_2003 conda-forge jedi 0.18.0 py39h6e9494a_3 conda-forge jinja2 3.0.2 pyhd8ed1ab_0 conda-forge jpeg 9d hbcb3906_0 conda-forge jsonschema 4.2.1 pyhd8ed1ab_0 conda-forge jupyter_client 7.0.6 pyhd8ed1ab_0 conda-forge jupyter_core 4.9.1 py39h6e9494a_0 conda-forge jupyterlab_pygments 0.1.2 pyh9f0ad1d_0 conda-forge krb5 1.19.2 hcfbf3a7_3 conda-forge ld64 530 hd2e7500_21 conda-forge ld64_osx-64 530 he8994da_21 conda-forge ldid 2.1.2 h6a69015_3 conda-forge lerc 3.0 he49afe7_0 conda-forge libblas 3.9.0 12_osx64_openblas conda-forge libcblas 3.9.0 12_osx64_openblas conda-forge libclang-cpp11.1 11.1.0 default_he082bbe_1 conda-forge libcurl 7.79.1 hf45b732_1 conda-forge libcxx 12.0.1 habf9029_0 conda-forge libdeflate 1.8 h0d85af4_0 conda-forge libedit 3.1.20191231 h0678c8f_2 conda-forge libev 4.33 haf1e3a3_1 conda-forge libffi 3.4.2 he49afe7_4 conda-forge libgd 2.3.3 h311d3fc_0 conda-forge libgfortran 5.0.0 9_3_0_h6c81a4c_23 conda-forge libgfortran-devel_osx-64 9.3.0 h6c81a4c_23 conda-forge libgfortran5 9.3.0 h6c81a4c_23 conda-forge libglib 2.70.0 hf1fb8c0_1 conda-forge libiconv 1.16 haf1e3a3_0 conda-forge liblapack 3.9.0 12_osx64_openblas conda-forge libllvm10 10.0.1 h009f743_3 conda-forge libllvm11 11.1.0 hd011deb_2 conda-forge libllvm9 9.0.1 default_h2671707_4 conda-forge libnghttp2 1.43.0 h6f36284_1 conda-forge libopenblas 0.3.18 openmp_h3351f45_0 conda-forge libpng 1.6.37 h7cec526_2 conda-forge librsvg 2.52.3 h02b643e_0 conda-forge libsodium 1.0.18 hbcb3906_1 conda-forge libssh2 1.10.0 h52ee1ee_2 conda-forge libtiff 4.3.0 hd146c10_2 conda-forge libtool 2.4.6 he49afe7_1008 conda-forge libwebp 1.2.1 h28dabe5_0 conda-forge libwebp-base 1.2.1 h0d85af4_0 conda-forge libxml2 2.9.12 h93ec3fd_0 conda-forge libzlib 1.2.11 h9173be1_1013 conda-forge llvm-openmp 12.0.1 hda6cdc1_1 conda-forge llvm-tools 11.1.0 hd011deb_2 conda-forge llvmlite 0.36.0 py39h798a4f4_0 conda-forge lz4-c 1.9.3 he49afe7_1 conda-forge markupsafe 2.0.1 py39h89e85a6_1 conda-forge matplotlib-inline 0.1.3 pyhd8ed1ab_0 conda-forge metakernel 0.27.5 pyhd3deb0d_0 conda-forge mistune 0.8.4 py39h89e85a6_1005 conda-forge mpc 1.2.1 hbb51d92_0 conda-forge mpfr 4.1.0 h0f52abe_1 conda-forge nbclient 0.5.4 pyhd8ed1ab_0 conda-forge nbconvert 6.2.0 py39h6e9494a_0 conda-forge nbformat 5.1.3 pyhd8ed1ab_0 conda-forge ncurses 6.2 h2e338ed_4 conda-forge nest-asyncio 1.5.1 pyhd8ed1ab_0 conda-forge nlohmann_json 3.10.4 he49afe7_0 conda-forge notebook 6.4.5 pyha770c72_0 conda-forge numba 0.53.0 py39he2616bd_0 conda-forge numpy 1.21.4 py39h7eed0ac_0 conda-forge openssl 1.1.1l h0d85af4_0 conda-forge packaging 21.0 pyhd8ed1ab_0 conda-forge pandoc 2.16.1 h0d85af4_0 conda-forge pandocfilters 1.5.0 pyhd8ed1ab_0 conda-forge pango 1.48.10 h056538c_2 conda-forge parso 0.8.2 pyhd8ed1ab_0 conda-forge pcre 8.45 he49afe7_0 conda-forge pexpect 4.8.0 pyh9f0ad1d_2 conda-forge pickleshare 0.7.5 py_1003 conda-forge pip 21.3.1 pyhd8ed1ab_0 conda-forge pixman 0.40.0 hbcb3906_0 conda-forge portalocker 2.3.2 py39h6e9494a_0 conda-forge prometheus_client 0.12.0 pyhd8ed1ab_0 conda-forge prompt-toolkit 3.0.22 pyha770c72_0 conda-forge psutil 5.8.0 py39h89e85a6_2 conda-forge ptyprocess 0.7.0 pyhd3deb0d_0 conda-forge pycparser 2.21 pyhd8ed1ab_0 conda-forge pygments 2.10.0 pyhd8ed1ab_0 conda-forge pyparsing 3.0.4 pyhd8ed1ab_0 conda-forge pyrsistent 0.18.0 py39h89e85a6_0 conda-forge pythia8 8.305 py39h9fcab8e_0 conda-forge python 3.9.7 h1248fe1_3_cpython conda-forge python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge python_abi 3.9 2_cp39 conda-forge pyzmq 22.3.0 py39h7fec2f1_1 conda-forge readline 8.1 h05e3726_0 conda-forge root 6.24.6 py39h757cd7f_0 conda-forge root_base 6.24.6 py39h1d38ebb_0 conda-forge scitokens-cpp 0.6.3 h27338ba_1 conda-forge send2trash 1.8.0 pyhd8ed1ab_0 conda-forge setuptools 58.5.3 py39h6e9494a_0 conda-forge six 1.16.0 pyh6c4a22f_0 conda-forge sqlite 3.36.0 h23a322b_2 conda-forge tapi 1100.0.11 h9ce4665_0 conda-forge tbb 2021.4.0 h940c156_1 conda-forge terminado 0.12.1 py39h6e9494a_1 conda-forge testpath 0.5.0 pyhd8ed1ab_0 conda-forge tk 8.6.11 h5dbffcc_1 conda-forge tornado 6.1 py39h89e85a6_2 conda-forge tqdm 4.62.3 pyhd8ed1ab_0 conda-forge traitlets 5.1.1 pyhd8ed1ab_0 conda-forge tzdata 2021e he74cb21_0 conda-forge vdt 0.4.3 h046ec9c_0 conda-forge vector-classes 1.4.2 h940c156_1 conda-forge wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge webencodings 0.5.1 py_1 conda-forge wheel 0.37.0 pyhd8ed1ab_1 conda-forge xrootd 5.3.2 py39heed53e9_1 conda-forge xxhash 0.8.0 h35c211d_3 conda-forge xz 5.2.5 haf1e3a3_1 conda-forge zeromq 4.3.4 he49afe7_1 conda-forge zipp 3.6.0 pyhd8ed1ab_0 conda-forge zlib 1.2.11 h9173be1_1013 conda-forge zstd 1.5.0 h582d3a0_0 conda-forge ```


Details about conda and system ( conda info ):

``` $ conda info active environment : myroot active env location : /Users/mbomben/miniconda3/envs/myroot shell level : 1 user config file : /Users/mbomben/.condarc populated config files : /Users/mbomben/.condarc conda version : 4.10.3 conda-build version : not installed python version : 3.7.3.final.0 virtual packages : __osx=10.16=0 __unix=0=0 __archspec=1=x86_64 base environment : /Users/mbomben/miniconda3 (writable) conda av data dir : /Users/mbomben/miniconda3/etc/conda conda av metadata url : None channel URLs : https://repo.anaconda.com/pkgs/main/osx-64 https://repo.anaconda.com/pkgs/main/noarch https://repo.anaconda.com/pkgs/r/osx-64 https://repo.anaconda.com/pkgs/r/noarch package cache : /Users/mbomben/miniconda3/pkgs /Users/mbomben/.conda/pkgs envs directories : /Users/mbomben/miniconda3/envs /Users/mbomben/.conda/envs platform : osx-64 user-agent : conda/4.10.3 requests/2.26.0 CPython/3.7.3 Darwin/20.6.0 OSX/10.16 UID:GID : 502:1415430927 netrc file : None offline mode : False ```

Any help will be greatly appreciated.

Many thanks in advance and kind regards, Marco Bomben

aphecetche commented 3 years ago

I believe I'm also encountering that issue (both on 11.6 x86 as the OP, and also on 12.0.1 M1).

Environment (conda list)

``` $ conda list # packages in environment at /Users/beta/mambaforge/envs/beta: # # Name Version Build Channel afterimage 1.21 h4dd67e6_1003 conda-forge appnope 0.1.2 py39h6e9494a_2 conda-forge argon2-cffi 21.1.0 py39h89e85a6_2 conda-forge async_generator 1.10 py_0 conda-forge atk-1.0 2.36.0 he69c4ee_4 conda-forge attrs 21.2.0 pyhd8ed1ab_0 conda-forge backcall 0.2.0 pyh9f0ad1d_0 conda-forge backports 1.0 py_2 conda-forge backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge bleach 4.1.0 pyhd8ed1ab_0 conda-forge bzip2 1.0.8 h0d85af4_4 conda-forge c-ares 1.18.1 h0d85af4_0 conda-forge c-compiler 1.3.0 h0d85af4_0 conda-forge ca-certificates 2021.10.8 h033912b_0 conda-forge cairo 1.16.0 he01c77b_1009 conda-forge cctools 949.0.1 hd9211c8_21 conda-forge cctools_osx-64 949.0.1 h6407bdd_21 conda-forge cffi 1.15.0 py39he338e87_0 conda-forge cfitsio 3.470 h01dc385_7 conda-forge clang 11.1.0 h694c41f_1 conda-forge clang-11 11.1.0 default_he082bbe_1 conda-forge clang_osx-64 11.1.0 hb91bd55_4 conda-forge clangxx 11.1.0 default_he082bbe_1 conda-forge clangxx_osx-64 11.1.0 h7e1b574_4 conda-forge colorama 0.4.4 pyh9f0ad1d_0 conda-forge compiler-rt 11.1.0 h654b07c_0 conda-forge compiler-rt_osx-64 11.1.0 h8c5fa43_0 conda-forge compilers 1.3.0 h694c41f_0 conda-forge cxx-compiler 1.3.0 h940c156_0 conda-forge davix 0.7.6 ha0fbd20_0 conda-forge debugpy 1.5.1 py39h9fcab8e_0 conda-forge decorator 5.1.0 pyhd8ed1ab_0 conda-forge defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge entrypoints 0.3 py39hde42818_1002 conda-forge expat 2.4.1 he49afe7_0 conda-forge fftw 3.3.10 nompi_h4024a70_101 conda-forge font-ttf-dejavu-sans-mono 2.37 hab24e00_0 conda-forge font-ttf-inconsolata 3.000 h77eed37_0 conda-forge font-ttf-source-code-pro 2.038 h77eed37_0 conda-forge font-ttf-ubuntu 0.83 hab24e00_0 conda-forge fontconfig 2.13.1 h10f422b_1005 conda-forge fonts-conda-ecosystem 1 0 conda-forge fonts-conda-forge 1 0 conda-forge fortran-compiler 1.3.0 h6818c3e_0 conda-forge freetype 2.10.4 h4cff582_1 conda-forge fribidi 1.0.10 hbcb3906_0 conda-forge ftgl 2.4.0 h508da5b_0 conda-forge gdk-pixbuf 2.42.6 h2e6141f_0 conda-forge gettext 0.19.8.1 hd1a6beb_1008 conda-forge gfortran 9.3.0 h768ea0c_14 conda-forge gfortran_impl_osx-64 9.3.0 h9cc0e5e_23 conda-forge gfortran_osx-64 9.3.0 h18f7dce_14 conda-forge giflib 5.2.1 hbcb3906_2 conda-forge gl2ps 1.4.2 h4cff582_0 conda-forge glew 2.1.0 h046ec9c_2 conda-forge gmp 6.2.1 h2e338ed_0 conda-forge graphite2 1.3.13 h2e338ed_1001 conda-forge graphviz 2.49.3 h77de9ca_0 conda-forge gsl 2.7 h93259b0_0 conda-forge gsoap_abi 2.8.109 h694c41f_0 conda-forge gtk2 2.24.33 h675d97a_1 conda-forge gts 0.7.6 hccb3bdf_2 conda-forge harfbuzz 3.1.1 h447b35c_1 conda-forge icu 69.1 he49afe7_0 conda-forge importlib-metadata 4.8.2 py39h6e9494a_0 conda-forge importlib_resources 5.4.0 pyhd8ed1ab_0 conda-forge ipykernel 6.5.0 py39h71a6800_0 conda-forge ipyparallel 8.0.0 pyhd8ed1ab_0 conda-forge ipython 7.29.0 py39h71a6800_2 conda-forge ipython_genutils 0.2.0 py_1 conda-forge isl 0.22.1 hb1e8313_2 conda-forge jbig 2.1 h0d85af4_2003 conda-forge jedi 0.18.0 py39h6e9494a_3 conda-forge jinja2 3.0.3 pyhd8ed1ab_0 conda-forge jpeg 9d hbcb3906_0 conda-forge jsonschema 4.2.1 pyhd8ed1ab_0 conda-forge jupyter_client 7.0.6 pyhd8ed1ab_0 conda-forge jupyter_core 4.9.1 py39h6e9494a_1 conda-forge jupyterlab_pygments 0.1.2 pyh9f0ad1d_0 conda-forge krb5 1.19.2 hcfbf3a7_3 conda-forge ld64 530 hd2e7500_21 conda-forge ld64_osx-64 530 he8994da_21 conda-forge ldid 2.1.2 h6a69015_3 conda-forge lerc 3.0 he49afe7_0 conda-forge libblas 3.9.0 12_osx64_openblas conda-forge libcblas 3.9.0 12_osx64_openblas conda-forge libclang-cpp11.1 11.1.0 default_he082bbe_1 conda-forge libcurl 7.80.0 hf45b732_0 conda-forge libcxx 12.0.1 habf9029_0 conda-forge libdeflate 1.8 h0d85af4_0 conda-forge libedit 3.1.20191231 h0678c8f_2 conda-forge libev 4.33 haf1e3a3_1 conda-forge libffi 3.4.2 h0d85af4_5 conda-forge libgd 2.3.3 hb8742e1_1 conda-forge libgfortran 5.0.0 9_3_0_h6c81a4c_23 conda-forge libgfortran-devel_osx-64 9.3.0 h6c81a4c_23 conda-forge libgfortran5 9.3.0 h6c81a4c_23 conda-forge libglib 2.70.0 hf1fb8c0_1 conda-forge libiconv 1.16 haf1e3a3_0 conda-forge liblapack 3.9.0 12_osx64_openblas conda-forge libllvm11 11.1.0 hd011deb_2 conda-forge libllvm9 9.0.1 default_h2671707_4 conda-forge libnghttp2 1.43.0 h6f36284_1 conda-forge libopenblas 0.3.18 openmp_h3351f45_0 conda-forge libpng 1.6.37 h7cec526_2 conda-forge librsvg 2.52.3 h02b643e_0 conda-forge libsodium 1.0.18 hbcb3906_1 conda-forge libssh2 1.10.0 h52ee1ee_2 conda-forge libtiff 4.3.0 hd146c10_2 conda-forge libtool 2.4.6 he49afe7_1008 conda-forge libwebp 1.2.1 h28dabe5_0 conda-forge libwebp-base 1.2.1 h0d85af4_0 conda-forge libxml2 2.9.12 h7e28ab6_1 conda-forge libzlib 1.2.11 h9173be1_1013 conda-forge llvm-openmp 12.0.1 hda6cdc1_1 conda-forge llvm-tools 11.1.0 hd011deb_2 conda-forge llvmlite 0.37.0 py39h798a4f4_0 conda-forge lz4-c 1.9.3 he49afe7_1 conda-forge markupsafe 2.0.1 py39h89e85a6_1 conda-forge matplotlib-inline 0.1.3 pyhd8ed1ab_0 conda-forge metakernel 0.27.5 pyhd3deb0d_0 conda-forge mistune 0.8.4 py39h89e85a6_1005 conda-forge mpc 1.2.1 hbb51d92_0 conda-forge mpfr 4.1.0 h0f52abe_1 conda-forge nbclient 0.5.8 pyhd8ed1ab_0 conda-forge nbconvert 6.3.0 py39h6e9494a_0 conda-forge nbformat 5.1.3 pyhd8ed1ab_0 conda-forge ncurses 6.2 h2e338ed_4 conda-forge nest-asyncio 1.5.1 pyhd8ed1ab_0 conda-forge nlohmann_json 3.10.4 he49afe7_0 conda-forge notebook 6.4.5 pyha770c72_0 conda-forge numba 0.54.1 py39h58500fb_0 conda-forge numpy 1.20.3 py39h7eed0ac_1 conda-forge openssl 1.1.1l h0d85af4_0 conda-forge packaging 21.2 pyhd8ed1ab_1 conda-forge pandoc 2.16.1 h0d85af4_0 conda-forge pandocfilters 1.5.0 pyhd8ed1ab_0 conda-forge pango 1.48.10 h056538c_2 conda-forge parso 0.8.2 pyhd8ed1ab_0 conda-forge pcre 8.45 he49afe7_0 conda-forge pexpect 4.8.0 pyh9f0ad1d_2 conda-forge pickleshare 0.7.5 py39hde42818_1002 conda-forge pip 21.3.1 pyhd8ed1ab_0 conda-forge pixman 0.40.0 hbcb3906_0 conda-forge portalocker 2.3.2 py39h6e9494a_0 conda-forge prometheus_client 0.12.0 pyhd8ed1ab_0 conda-forge prompt-toolkit 3.0.22 pyha770c72_0 conda-forge psutil 5.8.0 py39h89e85a6_2 conda-forge ptyprocess 0.7.0 pyhd3deb0d_0 conda-forge pycparser 2.21 pyhd8ed1ab_0 conda-forge pygments 2.10.0 pyhd8ed1ab_0 conda-forge pyparsing 2.4.7 pyhd8ed1ab_1 conda-forge pyrsistent 0.18.0 py39h89e85a6_0 conda-forge pythia8 8.305 py39h9fcab8e_0 conda-forge python 3.9.7 h1248fe1_3_cpython conda-forge python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge python_abi 3.9 2_cp39 conda-forge pyzmq 22.3.0 py39h7fec2f1_1 conda-forge readline 8.1 h05e3726_0 conda-forge root 6.24.6 py39h757cd7f_0 conda-forge root_base 6.24.6 py39h1d38ebb_0 conda-forge scitokens-cpp 0.6.3 h27338ba_1 conda-forge send2trash 1.8.0 pyhd8ed1ab_0 conda-forge setuptools 58.5.3 py39h6e9494a_0 conda-forge six 1.16.0 pyh6c4a22f_0 conda-forge sqlite 3.36.0 h23a322b_2 conda-forge tapi 1100.0.11 h9ce4665_0 conda-forge tbb 2021.4.0 h940c156_1 conda-forge terminado 0.12.1 py39h6e9494a_1 conda-forge testpath 0.5.0 pyhd8ed1ab_0 conda-forge tk 8.6.11 h5dbffcc_1 conda-forge tornado 6.1 py39h89e85a6_2 conda-forge tqdm 4.62.3 pyhd8ed1ab_0 conda-forge traitlets 5.1.1 pyhd8ed1ab_0 conda-forge tzdata 2021e he74cb21_0 conda-forge vdt 0.4.3 h046ec9c_0 conda-forge vector-classes 1.4.2 h940c156_1 conda-forge wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge webencodings 0.5.1 py_1 conda-forge wheel 0.37.0 pyhd8ed1ab_1 conda-forge xrootd 5.3.2 py39heed53e9_1 conda-forge xxhash 0.8.0 h35c211d_3 conda-forge xz 5.2.5 haf1e3a3_1 conda-forge zeromq 4.3.4 he49afe7_1 conda-forge zipp 3.6.0 pyhd8ed1ab_0 conda-forge zlib 1.2.11 h9173be1_1013 conda-forge zstd 1.5.0 h582d3a0_0 conda-forge ```

Details about conda and system (conda info) :

``` $ conda info active environment : beta active env location : /Users/beta/mambaforge/envs/beta shell level : 2 user config file : /Users/beta/.condarc populated config files : /Users/beta/mambaforge/.condarc conda version : 4.10.3 conda-build version : not installed python version : 3.9.7.final.0 virtual packages : __osx=11.6.1=0 __unix=0=0 __archspec=1=x86_64 base environment : /Users/beta/mambaforge (writable) conda av data dir : /Users/beta/mambaforge/etc/conda conda av metadata url : None channel URLs : https://conda.anaconda.org/conda-forge/osx-64 https://conda.anaconda.org/conda-forge/noarch package cache : /Users/beta/mambaforge/pkgs /Users/beta/.conda/pkgs envs directories : /Users/beta/mambaforge/envs /Users/beta/.conda/envs platform : osx-64 user-agent : conda/4.10.3 requests/2.26.0 CPython/3.9.7 Darwin/20.6.0 OSX/11.6.1 UID:GID : 503:20 netrc file : None offline mode : False ```
henryiii commented 3 years ago

Same issue locally, seems to have become unusable on macOS. (12, Intel)

henryiii commented 3 years ago

Also same issue with homebrew, FYI. It's not built for macOS 12 yet, but interestingly the same issue.

henryiii commented 3 years ago

Actually the problem is that Xcode 13.1 needs new binaries. See https://root-forum.cern.ch/t/problem-with-root-on-macos-error-module-darwin-uses-additional-module-map/47443 and https://root-forum.cern.ch/t/root-6-24-06-can-not-work-on-macos-monterey/47409/6.

Basically, we need a rebuild with Xcode 13.1 (which will then stop it from working with anyone using 13.0 or earlier, I expect).

chrisburr commented 3 years ago

Basically, we need a rebuild with Xcode 13.1 (which will then stop it from working with anyone using 13.0 or earlier, I expect).

This shouldn't ever be the case for conda-forge as we don't use compilers from XCode though new SDKs do occasioanlly require tweaks to the conda-forge compilers.

I'll try to take a look today (need to update to 11.6 first) but you might be able to avoid the issue by setting SDK_ROOT to an older SDK (I get them from https://github.com/phracker/MacOSX-SDKs).

aphecetche commented 3 years ago

@chrisburr sorry for the naive question, but when/where should I set the SDK_ROOT ? Before creating my environment ? (which I do with conda env create -f dev-environment.yml )

$ cat dev-environment.yml
name: m2-exp-dev
channels:
  - conda-forge
dependencies:
  - root=6.24.*
  - fmt=7.1.*
  - uproot=4.0.*
  - ipympl=0.7.*
  - boost=1.75.*
  - rapidjson=1.1.*
  - jupyter=1.0.*
  - jupyterlab>=3
  - twine=3.4.*
  - ninja>=1
  - cmake=3.19.*
  - pybind11>=2
  - pytest>=6
  - vector>=0.8
aphecetche commented 3 years ago

@chrisburr @henryiii any news on this one ? thanks.

LemurPwned commented 2 years ago

I have the same issue with Monterey 12.1 (M1). Any updates? Thanks

chrisburr commented 2 years ago

This can be worked around by using and a macOS 11.x SDK instead of a macOS 12.x one by setting this variable:

export CONDA_BUILD_SYSROOT=/Library/Developer/CommandLineTools/SDKs/MacOSX11.3.sdk/

If you've updated you should have older SDKs lying around, unfortunately the license prevents conda-forge from shipping it ourselves.

I'll work with the ROOT team to find a proper solution soon: https://root-forum.cern.ch/t/conda-root-and-macos-12-reprise/49135/10