Conda install pip failed!

poppintiger commented 5 years ago

When I install C-PAC by running “sudo ./cpac_install.sh -r”， it pop up this following error. Dose any one know how to fix it?

[ Tue Oct 23 17:33:49 CST 2018 ] : C-PAC system dependencies are already installed, do not need to be re-installed. [ Tue Oct 23 17:33:49 CST 2018 ] Installing miniconda! ERROR: File or directory already exists: /usr/local/bin/miniconda [ Tue Oct 23 17:33:49 CST 2018 ] Miniconda installation failed! Error: prefix already exists: /usr/local/bin/miniconda/envs/cpac discarding /usr/local/bin/miniconda/bin from PATH prepending /usr/local/bin/miniconda/envs/cpac/bin to PATH Fetching package metadata: ..... Solving package specifications: ^[[B

^[[A^H^HAn unexpected error has occurred, please consider sending the following traceback to the conda GitHub issue tracker at:

https://github.com/conda/conda/issues

Include the output of the command 'conda info' in your report.

Traceback (most recent call last): File "/usr/local/bin/miniconda/envs/cpac/bin/conda", line 5, in sys.exit(main()) File "/usr/local/bin/miniconda/lib/python2.7/site-packages/conda/cli/main.py", line 202, in main args_func(args, p) File "/usr/local/bin/miniconda/lib/python2.7/site-packages/conda/cli/main.py", line 207, in args_func args.func(args, p) File "/usr/local/bin/miniconda/lib/python2.7/site-packages/conda/cli/main_install.py", line 46, in execute install.install(args, parser, 'install') File "/usr/local/bin/miniconda/lib/python2.7/site-packages/conda/cli/install.py", line 329, in install only_names=only_names, pinned=args.pinned, minimal_hint=args.alt_hint) File "/usr/local/bin/miniconda/lib/python2.7/site-packages/conda/plan.py", line 377, in install_actions config.track_features, minimal_hint=minimal_hint): File "/usr/local/bin/miniconda/lib/python2.7/site-packages/conda/resolve.py", line 733, in solve minimal_hint=minimal_hint) File "/usr/local/bin/miniconda/lib/python2.7/site-packages/conda/resolve.py", line 504, in solve2 clauses = set(self.gen_clauses(v, dists, specs, features)) File "/usr/local/bin/miniconda/lib/python2.7/site-packages/conda/resolve.py", line 342, in gen_clauses assert len(clause) > 1, '%s %r' % (fn1, ms) AssertionError: numpy-base-1.14.3-py35h0ea5e3f_1.tar.bz2 MatchSpec(u'blas * openblas') [ Tue Oct 23 18:52:21 CST 2018 ] Conda install pip failed!

poppintiger commented 5 years ago

When I remove the miniconda file，it pop up this error message：

discarding /usr/local/bin/miniconda/bin from PATH prepending /usr/local/bin/miniconda/envs/cpac/bin to PATH Fetching package metadata: ..... Error: No packages found in current linux-64 channels matching: pip ==18.0

You can search for this package on Binstar with

binstar search -t conda pip ==18.0

You may need to install the Binstar command line client with

conda install binstar

[ Wed Oct 24 10:15:59 CST 2018 ] Conda install failed!

anibalsolon commented 5 years ago

Hi @poppintiger

It looks like you already have C-PAC installed on your machine! Which "miniconda" file have you removed?

You can try to reinstall C-PAC using:

source activate cpac
pip install git+git://github.com/FCP-INDI/C-PAC.git

Please let us know about your progress!

poppintiger commented 5 years ago

Hi, Thank you for your reply ! I have already degraded my ubuntu system from 16 to 14, but when I install by running this command: It still show some errors: said: I need apt-get -f install to correct the errors and: [ 2018年 11月 05日星期一 13:38:09 CST ] apt-get failed to install packages: cmake git graphviz graphviz-dev gsl-bin libexpat1-dev libgiftiio-dev libglib2.0-dev libglu1-mesa-dev libjpeg-progs libxml2-dev libxext-dev libxft-dev libxi-dev libxmu-headers libxmu-dev libxpm-dev libxslt1-dev mesa-common-dev mesa-utils netpbm build-essential xvfb libgl1-mesa-dri tcsh zlib1g-dev m4 libmotif-dev libxp-dev libgsl0-dev

[ 2018年 11月 05日星期一 13:38:09 CST ] apt-get failed to install packages: cmake git graphviz graphviz-dev gsl-bin libexpat1-dev libgiftiio-dev libglib2.0-dev libglu1-mesa-dev libjpeg-progs libxml2-dev libxext-dev libxft-dev libxi-dev libxmu-headers libxmu-dev libxpm-dev libxslt1-dev mesa-common-dev mesa-utils netpbm build-essential xvfb libgl1-mesa-dri tcsh zlib1g-dev m4 libmotif-dev libxp-dev libgsl0-dev

Cannot fully install C-PAC system dependencies.

poppintiger commented 5 years ago

[ 2018年 11月 05日星期一 14:00:57 CST ] : C-PAC system dependencies not fully installed. Python dependencies cannot be installed unless system-level dependencies are installed first. Have your system administrator install system-level dependencies as root.

poppintiger commented 5 years ago

Hi , I followed your method by running the code: source activate cpac pip install git+git://github.com/FCP-INDI/C-PAC.git

Unfortunately, I cannot import the package: When I import directly in capc environment:

(cpac)lsx@lsx-Vostro:$ import CPAC.timeseries.timeseries_analysis as t import-im6.q16: not authorized `t' @ error/constitute.c/WriteImage/1037.

When I came into python environment, it was still not working.

(cpac)lsx@lsx-Vostro:$ python Python 2.7.15 |Anaconda, Inc.| (default, Oct 23 2018, 18:31:10) [GCC 7.3.0] on linux2 Type "help", "copyright", "credits" or "license" for more information.

         from CPAC.anat_preproc import create_anat_preproc
        Traceback (most recent call last):
        File "", line 1, in
        ImportError: No module named CPAC.anat_preproc

So, how can I solve it?

anibalsolon commented 5 years ago

Hi @poppintiger do you have any updates in this matter? sorry for dropping the ball in this one.

FCP-INDI / C-PAC

Conda install pip failed! #845