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HubLot/command line

Created February 20, 2018 08:21
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Log Conda build
Raw
command line
[santuz@sablons:conda (master=)]$ conda-build -c bioconda -c conda-forge pbxplore -c anaconda
Adding in variants from internal_defaults
INFO:conda_build.variants:Adding in variants from internal_defaults
Attempting to finalize metadata for pbxplore
INFO:conda_build.metadata:Attempting to finalize metadata for pbxplore
Solving environment: ...working... done
Solving environment: ...working... done
BUILD START: ['pbxplore-1.3.8-py36_0.tar.bz2']
Solving environment: ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla
The following NEW packages will be INSTALLED:
backports: 1.0-py36_1 conda-forge
backports.functools_lru_cache: 1.5-py36_0 conda-forge
biopython: 1.70-py36_2 conda-forge
blas: 1.1-openblas conda-forge
ca-certificates: 2018.1.18-0 conda-forge
certifi: 2018.1.18-py36_0 conda-forge
curl: 7.55.1-0 conda-forge
cycler: 0.10.0-py36_0 conda-forge
dbus: 1.10.22-0 conda-forge
decorator: 4.1.2-py36_0 conda-forge
expat: 2.2.5-0 conda-forge
fontconfig: 2.12.6-0 conda-forge
freetype: 2.8.1-0 conda-forge
gettext: 0.19.8.1-0 conda-forge
glib: 2.55.0-0 conda-forge
griddataformats: 0.4.0-py_0 conda-forge
gsd: 1.5.0-py36_0 conda-forge
gst-plugins-base: 1.8.0-0 conda-forge
gstreamer: 1.8.0-1 conda-forge
hdf4: 4.2.13-0 conda-forge
hdf5: 1.10.1-1 conda-forge
icu: 58.2-0 conda-forge
joblib: 0.11-py36_0 conda-forge
jpeg: 9b-2 conda-forge
krb5: 1.14.2-0 conda-forge
libffi: 3.2.1-3 conda-forge
libgfortran: 3.0.0-1 anaconda
libiconv: 1.15-0 conda-forge
libnetcdf: 4.5.0-3 conda-forge
libpng: 1.6.34-0 conda-forge
libssh2: 1.8.0-2 conda-forge
libxcb: 1.12-1 conda-forge
libxml2: 2.9.7-0 conda-forge
matplotlib: 2.1.2-py36_0 conda-forge
mdanalysis: 0.17.0-py36_0 conda-forge
mmtf-python: 1.0.10-py_0 conda-forge
msgpack-python: 0.5.1-py36_0 conda-forge
ncurses: 5.9-10 conda-forge
netcdf4: 1.3.1-py36_2 conda-forge
networkx: 2.1-py36_0 conda-forge
numpy: 1.11.3-py36_blas_openblas_203 conda-forge [blas_openblas]
openblas: 0.2.20-7 conda-forge
openssl: 1.0.2n-0 conda-forge
pandas: 0.22.0-py36_0 conda-forge
patsy: 0.5.0-py36_0 conda-forge
pcre: 8.39-0 conda-forge
pip: 9.0.1-py36_1 conda-forge
pyparsing: 2.2.0-py36_0 conda-forge
pyqt: 5.6.0-py36_4 conda-forge
python: 3.6.4-0 conda-forge
python-dateutil: 2.6.1-py36_0 conda-forge
python-weblogo: 3.4-py36_0 bioconda
pytz: 2018.3-py_0 conda-forge
qt: 5.6.2-7 conda-forge
readline: 7.0-0 conda-forge
scikit-learn: 0.19.1-py36_blas_openblas_201 conda-forge [blas_openblas]
scipy: 1.0.0-py36_blas_openblas_201 conda-forge [blas_openblas]
seaborn: 0.8.1-py36_0 conda-forge
setuptools: 38.5.1-py36_0 conda-forge
sip: 4.18-py36_1 conda-forge
six: 1.11.0-py36_1 conda-forge
sqlite: 3.20.1-2 conda-forge
statsmodels: 0.8.0-py36_0 conda-forge
tk: 8.6.7-0 conda-forge
tornado: 4.5.3-py36_0 conda-forge
wheel: 0.30.0-py36_2 conda-forge
xorg-libxau: 1.0.8-3 conda-forge
xorg-libxdmcp: 1.1.2-3 conda-forge
xz: 5.2.3-0 conda-forge
zlib: 1.2.11-0 conda-forge
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Clonage dans '/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/work'...
fait.
checkout: 'v1.3.8'
Note: checking out 'v1.3.8'.
You are in 'detached HEAD' state. You can look around, make experimental
changes and commit them, and you can discard any commits you make in this
state without impacting any branches by performing another checkout.
If you want to create a new branch to retain commits you create, you may
do so (now or later) by using -b with the checkout command again. Example:
git checkout -b <new-branch-name>
HEAD est maintenant sur 3449404... Bump version: 1.3.7 → 1.3.8
==> git log -n1 <==
commit 3449404b9787d375690cc305fe6560d0919b294c
Author: Pierre Poulain <[email protected]>
Date: Wed Oct 18 00:22:54 2017 +0200
Bump version: 1.3.7 → 1.3.8
==> git describe --tags --dirty <==
v1.3.8
==> git status <==
HEAD détachée sur v1.3.8
rien à valider, la copie de travail est propre
source tree in: /ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/work
Traceback (most recent call last):
File "setup.py", line 72, in <module>
'PBstat = pbxplore.scripts.PBstat:pbstat_cli',
File "/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla/lib/python3.6/site-packages/setuptools/__init__.py", line 128, in setup
_install_setup_requires(attrs)
File "/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla/lib/python3.6/site-packages/setuptools/__init__.py", line 123, in _install_setup_requires
dist.fetch_build_eggs(dist.setup_requires)
File "/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla/lib/python3.6/site-packages/setuptools/dist.py", line 461, in fetch_build_eggs
replace_conflicting=True,
File "/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla/lib/python3.6/site-packages/pkg_resources/__init__.py", line 866, in resolve
replace_conflicting=replace_conflicting
File "/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla/lib/python3.6/site-packages/pkg_resources/__init__.py", line 1146, in best_match
return self.obtain(req, installer)
File "/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla/lib/python3.6/site-packages/pkg_resources/__init__.py", line 1158, in obtain
return installer(requirement)
File "/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla/lib/python3.6/site-packages/setuptools/dist.py", line 528, in fetch_build_egg
return cmd.easy_install(req)
File "/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla/lib/python3.6/site-packages/setuptools/command/easy_install.py", line 661, in easy_install
not self.always_copy, self.local_index
File "/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla/lib/python3.6/site-packages/setuptools/package_index.py", line 660, in fetch_distribution
self.find_packages(requirement)
File "/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla/lib/python3.6/site-packages/setuptools/package_index.py", line 493, in find_packages
self.scan_url(self.index_url + requirement.unsafe_name + '/')
File "/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla/lib/python3.6/site-packages/setuptools/package_index.py", line 833, in scan_url
self.process_url(url, True)
File "/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla/lib/python3.6/site-packages/setuptools/package_index.py", line 328, in process_url
"Be sure to add all dependencies in the meta.yaml url=%s" % url)
RuntimeError: Setuptools downloading is disabled in conda build. Be sure to add all dependencies in the meta.yaml url=https://pypi.python.org/simple/pytest-runner/
Traceback (most recent call last):
File "/ibpc/sablons/santuz/miniconda3/bin/conda-build", line 11, in <module>
sys.exit(main())
File "/ibpc/sablons/santuz/miniconda3/lib/python3.6/site-packages/conda_build/cli/main_build.py", line 413, in main
execute(sys.argv[1:])
File "/ibpc/sablons/santuz/miniconda3/lib/python3.6/site-packages/conda_build/cli/main_build.py", line 404, in execute
verify=args.verify)
File "/ibpc/sablons/santuz/miniconda3/lib/python3.6/site-packages/conda_build/api.py", line 193, in build
need_source_download=need_source_download, config=config, variants=variants)
File "/ibpc/sablons/santuz/miniconda3/lib/python3.6/site-packages/conda_build/build.py", line 1962, in build_tree
notest=notest,
File "/ibpc/sablons/santuz/miniconda3/lib/python3.6/site-packages/conda_build/build.py", line 1248, in build
utils.check_call_env(cmd, env=env, cwd=src_dir)
File "/ibpc/sablons/santuz/miniconda3/lib/python3.6/site-packages/conda_build/utils.py", line 678, in check_call_env
return _func_defaulting_env_to_os_environ(subprocess.check_call, *popenargs, **kwargs)
File "/ibpc/sablons/santuz/miniconda3/lib/python3.6/site-packages/conda_build/utils.py", line 674, in _func_defaulting_env_to_os_environ
return func(_args, **kwargs)
File "/ibpc/sablons/santuz/miniconda3/lib/python3.6/subprocess.py", line 291, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['/bin/bash', '-e', '/ibpc/sablons/santuz/miniconda3/conda-bld/pbxplore_1519057108266/work/conda_build.sh']' returned non-zero exit status 1.
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