c-pac
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c-pac > error on cpac_gui (mint 17 x64)
Showing 1-2 of 2 posts
Jul 3, 2014 11:07 AM | Riccardo Navarra - ITAB - Università G D'Annunzio, Chieti
error on cpac_gui (mint 17 x64)
After install:
./cpac_install_v0.2.sh
########## CHECKING SYSTEM INFO AND SOFTWARE... ##########
Traceback (most recent call last):
File "", line 1, in
File "/usr/local/lib/python2.7/dist-packages/nipype/__init__.py", line 77, in
from pipeline import Node, MapNode, JoinNode, Workflow
File "/usr/local/lib/python2.7/dist-packages/nipype/pipeline/__init__.py", line 8, in
from engine import Node, MapNode, JoinNode, Workflow
File "/usr/local/lib/python2.7/dist-packages/nipype/pipeline/engine.py", line 45, in
from ..interfaces.base import (traits, InputMultiPath, CommandLine,
File "/usr/local/lib/python2.7/dist-packages/nipype/interfaces/__init__.py", line 12, in
import fsl, spm, freesurfer, afni, ants, slicer, dipy, nipy, mrtrix, camino
File "/usr/local/lib/python2.7/dist-packages/nipype/interfaces/mrtrix/__init__.py", line 14, in
from .convert import MRTrix2TrackVis
File "/usr/local/lib/python2.7/dist-packages/nipype/interfaces/mrtrix/convert.py", line 32, in
from dipy.tracking.utils import move_streamlines, affine_from_fsl_mat_file
ImportError: No module named utils
########## UPDATING SOFTWARE VIA APTITUDE... ##########
--------- ACQUIRING PYTHON DEPENDENCIES... ----------
Reading package lists... Done
Building dependency tree
Reading state information... Done
python-nibabel is already the newest version.
cython is already the newest version.
python-jinja2 is already the newest version.
python-lockfile is already the newest version.
python-networkx is already the newest version.
python-nose is already the newest version.
python-numpy is already the newest version.
ipython is already the newest version.
python-scipy is already the newest version.
python-traits is already the newest version.
python-wxgtk2.8 is already the newest version.
0 upgraded, 0 newly installed, 0 to remove and 23 not upgraded.
---------- ACQUIRING NEEDED UTILITIES/LIBRARIES... ----------
Reading package lists... Done
Building dependency tree
Reading state information... Done
Note, selecting 'libglu1-mesa' instead of 'libglu1'
git is already the newest version.
libcanberra-gtk-module is already the newest version.
libglu1-mesa is already the newest version.
libxp6 is already the newest version.
make is already the newest version.
netpbm is already the newest version.
unzip is already the newest version.
gsl-bin is already the newest version.
0 upgraded, 0 newly installed, 0 to remove and 23 not upgraded.
########## INSTALLING SOFTWARE TOOLS... ##########
---------- INSTALLING NIPYPE... ----------
--2014-07-03 12:21:01-- http://github.com/nipy/nipype/archive/0....
Resolving github.com (github.com)... 192.30.252.130
Connecting to github.com (github.com)|192.30.252.130|:80... connected.
HTTP request sent, awaiting response... 301 Moved Permanently
Location: https://github.com/nipy/nipype/archive/0... [following]
--2014-07-03 12:21:01-- https://github.com/nipy/nipype/archive/0...
Connecting to github.com (github.com)|192.30.252.130|:443... connected.
HTTP request sent, awaiting response... 302 Found
Location: https://codeload.github.com/nipy/nipype/... [following]
--2014-07-03 12:21:02-- https://codeload.github.com/nipy/nipype/...
Resolving codeload.github.com (codeload.github.com)... 192.30.252.144
Connecting to codeload.github.com (codeload.github.com)|192.30.252.144|:443... connected.
HTTP request sent, awaiting response... 200 OK
Length: unspecified [application/x-gzip]
Saving to: '0.9.1.tar.gz.1'
[ <=> ] 1.652.734 58,3KB/s in 20s
2014-07-03 12:21:23 (80,2 KB/s) - '0.9.1.tar.gz.1' saved [1652734]
Warning: No module named info/bin/sh: 1: svnversion: not found
/bin/sh: 1: hg: not found
running install
running build
running config_cc
unifing config_cc, config, build_clib, build_ext, build commands --compiler options
running config_fc
unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options
running build_py
running build_scripts
running install_lib
copying build/lib.linux-x86_64-2.7/nipype/COMMIT_INFO.txt -> /usr/local/lib/python2.7/dist-packages/nipype
running install_scripts
changing mode of /usr/local/bin/nipype_display_crash to 755
running install_data
running install_egg_info
Removing /usr/local/lib/python2.7/dist-packages/nipype-0.9.1.egg-info
Writing /usr/local/lib/python2.7/dist-packages/nipype-0.9.1.egg-info
running install_clib
customize UnixCCompiler
---------- COMPILING LATEST CMAKE... ---------
--2014-07-03 12:21:24-- http://www.cmake.org/files/v2.8/cmake-2....
Resolving http://www.cmake.org (www.cmake.org)... 66.194.253.19
Connecting to http://www.cmake.org (www.cmake.org)|66.194.253.19|:80... connected.
HTTP request sent, awaiting response... 200 OK
Length: 6068231 (5,8M) [application/x-gzip]
Saving to: 'cmake-2.8.12.2.tar.gz.1'
100%[======================================>] 6.068.231 91,1KB/s in 4m 6s
2014-07-03 12:25:32 (24,1 KB/s) - 'cmake-2.8.12.2.tar.gz.1' saved [6068231/6068231]
---------------------------------------------
CMake 2.8.12.2, Copyright 2000-2012 Kitware, Inc.
C compiler on this system is: cc
---------------------------------------------
Error when bootstrapping CMake:
Cannot find appropriate C++ compiler on this system.
Please specify one using environment variable CXX.
See cmake_bootstrap.log for compilers attempted.
---------------------------------------------
Log of errors: /home/riccardo/Downloads/cpac/CPAC-Downloads/cmake-2.8.12.2/Bootstrap.cmk/cmake_bootstrap.log
---------------------------------------------
make: *** No targets specified and no makefile found. Stop.
make: *** No rule to make target 'install'. Stop.
---------- INSTALLING ANTs... ----------
fatal: destination path 'ants-src' already exists and is not an empty directory.
mkdir: cannot create directory '/opt/ants': File exists
./cpac_install_v0.2.sh: line 127: /opt/cmake/bin/cmake: No such file or directory
make: *** No targets specified and no makefile found. Stop.
########## ACQUIRING CPAC IMAGE RESOURCES... ##########
--2014-07-03 12:25:33-- http://fcon_1000.projects.nitrc.org/indi...
Resolving fcon_1000.projects.nitrc.org (fcon_1000.projects.nitrc.org)... 132.239.16.23
Connecting to fcon_1000.projects.nitrc.org (fcon_1000.projects.nitrc.org)|132.239.16.23|:80... connected.
HTTP request sent, awaiting response... 200 OK
Length: 2401956 (2,3M) [application/zip]
Saving to: 'cpac_image_resources.zip.1'
100%[======================================>] 2.401.956 18,9KB/s in 67s
2014-07-03 12:26:41 (35,2 KB/s) - 'cpac_image_resources.zip.1' saved [2401956/2401956]
...
########## INSTALLING CPAC... ##########
--2014-07-03 12:26:49-- https://github.com/FCP-INDI/C-PAC/archiv...
Resolving github.com (github.com)... 192.30.252.129
Connecting to github.com (github.com)|192.30.252.129|:443... connected.
HTTP request sent, awaiting response... 302 Found
Location: https://codeload.github.com/FCP-INDI/C-P... [following]
--2014-07-03 12:26:54-- https://codeload.github.com/FCP-INDI/C-P...
Resolving codeload.github.com (codeload.github.com)... 192.30.252.147
Connecting to codeload.github.com (codeload.github.com)|192.30.252.147|:443... connected.
HTTP request sent, awaiting response... 200 OK
Length: unspecified [application/zip]
Saving to: 'master.zip.1'
[ <=> ] 11.563.471 58,1KB/s
....
running install_egg_info
Writing /usr/local/lib/python2.7/dist-packages/CPAC-0.3.3.dev.egg-info
running install_clib
customize UnixCCompiler
########## CLEANING UP... ##########
Reading package lists... Done
Building dependency tree
Reading state information... Done
0 upgraded, 0 newly installed, 0 to remove and 23 not upgraded.
chmod: cannot access '/home/riccardo/.matplotlib': No such file or directory
---------------------------------------------------------------------------------------------
run cpac_gui:
Traceback (most recent call last):
File "/usr/local/bin/cpac_gui", line 3, in
import CPAC
File "/usr/local/lib/python2.7/dist-packages/CPAC/__init__.py", line 18, in
import anat_preproc, \
File "/usr/local/lib/python2.7/dist-packages/CPAC/anat_preproc/__init__.py", line 1, in
from anat_preproc import create_anat_preproc
File "/usr/local/lib/python2.7/dist-packages/CPAC/anat_preproc/anat_preproc.py", line 3, in
from nipype.interfaces.afni import preprocess
File "/usr/local/lib/python2.7/dist-packages/nipype/__init__.py", line 77, in
from pipeline import Node, MapNode, JoinNode, Workflow
File "/usr/local/lib/python2.7/dist-packages/nipype/pipeline/__init__.py", line 8, in
from engine import Node, MapNode, JoinNode, Workflow
File "/usr/local/lib/python2.7/dist-packages/nipype/pipeline/engine.py", line 45, in
from ..interfaces.base import (traits, InputMultiPath, CommandLine,
File "/usr/local/lib/python2.7/dist-packages/nipype/interfaces/__init__.py", line 12, in
import fsl, spm, freesurfer, afni, ants, slicer, dipy, nipy, mrtrix, camino
File "/usr/local/lib/python2.7/dist-packages/nipype/interfaces/mrtrix/__init__.py", line 14, in
from .convert import MRTrix2TrackVis
File "/usr/local/lib/python2.7/dist-packages/nipype/interfaces/mrtrix/convert.py", line 32, in
from dipy.tracking.utils import move_streamlines, affine_from_fsl_mat_file
ImportError: No module named utils
./cpac_install_v0.2.sh
########## CHECKING SYSTEM INFO AND SOFTWARE... ##########
Traceback (most recent call last):
File "", line 1, in
File "/usr/local/lib/python2.7/dist-packages/nipype/__init__.py", line 77, in
from pipeline import Node, MapNode, JoinNode, Workflow
File "/usr/local/lib/python2.7/dist-packages/nipype/pipeline/__init__.py", line 8, in
from engine import Node, MapNode, JoinNode, Workflow
File "/usr/local/lib/python2.7/dist-packages/nipype/pipeline/engine.py", line 45, in
from ..interfaces.base import (traits, InputMultiPath, CommandLine,
File "/usr/local/lib/python2.7/dist-packages/nipype/interfaces/__init__.py", line 12, in
import fsl, spm, freesurfer, afni, ants, slicer, dipy, nipy, mrtrix, camino
File "/usr/local/lib/python2.7/dist-packages/nipype/interfaces/mrtrix/__init__.py", line 14, in
from .convert import MRTrix2TrackVis
File "/usr/local/lib/python2.7/dist-packages/nipype/interfaces/mrtrix/convert.py", line 32, in
from dipy.tracking.utils import move_streamlines, affine_from_fsl_mat_file
ImportError: No module named utils
########## UPDATING SOFTWARE VIA APTITUDE... ##########
--------- ACQUIRING PYTHON DEPENDENCIES... ----------
Reading package lists... Done
Building dependency tree
Reading state information... Done
python-nibabel is already the newest version.
cython is already the newest version.
python-jinja2 is already the newest version.
python-lockfile is already the newest version.
python-networkx is already the newest version.
python-nose is already the newest version.
python-numpy is already the newest version.
ipython is already the newest version.
python-scipy is already the newest version.
python-traits is already the newest version.
python-wxgtk2.8 is already the newest version.
0 upgraded, 0 newly installed, 0 to remove and 23 not upgraded.
---------- ACQUIRING NEEDED UTILITIES/LIBRARIES... ----------
Reading package lists... Done
Building dependency tree
Reading state information... Done
Note, selecting 'libglu1-mesa' instead of 'libglu1'
git is already the newest version.
libcanberra-gtk-module is already the newest version.
libglu1-mesa is already the newest version.
libxp6 is already the newest version.
make is already the newest version.
netpbm is already the newest version.
unzip is already the newest version.
gsl-bin is already the newest version.
0 upgraded, 0 newly installed, 0 to remove and 23 not upgraded.
########## INSTALLING SOFTWARE TOOLS... ##########
---------- INSTALLING NIPYPE... ----------
--2014-07-03 12:21:01-- http://github.com/nipy/nipype/archive/0....
Resolving github.com (github.com)... 192.30.252.130
Connecting to github.com (github.com)|192.30.252.130|:80... connected.
HTTP request sent, awaiting response... 301 Moved Permanently
Location: https://github.com/nipy/nipype/archive/0... [following]
--2014-07-03 12:21:01-- https://github.com/nipy/nipype/archive/0...
Connecting to github.com (github.com)|192.30.252.130|:443... connected.
HTTP request sent, awaiting response... 302 Found
Location: https://codeload.github.com/nipy/nipype/... [following]
--2014-07-03 12:21:02-- https://codeload.github.com/nipy/nipype/...
Resolving codeload.github.com (codeload.github.com)... 192.30.252.144
Connecting to codeload.github.com (codeload.github.com)|192.30.252.144|:443... connected.
HTTP request sent, awaiting response... 200 OK
Length: unspecified [application/x-gzip]
Saving to: '0.9.1.tar.gz.1'
[ <=> ] 1.652.734 58,3KB/s in 20s
2014-07-03 12:21:23 (80,2 KB/s) - '0.9.1.tar.gz.1' saved [1652734]
Warning: No module named info/bin/sh: 1: svnversion: not found
/bin/sh: 1: hg: not found
running install
running build
running config_cc
unifing config_cc, config, build_clib, build_ext, build commands --compiler options
running config_fc
unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options
running build_py
running build_scripts
running install_lib
copying build/lib.linux-x86_64-2.7/nipype/COMMIT_INFO.txt -> /usr/local/lib/python2.7/dist-packages/nipype
running install_scripts
changing mode of /usr/local/bin/nipype_display_crash to 755
running install_data
running install_egg_info
Removing /usr/local/lib/python2.7/dist-packages/nipype-0.9.1.egg-info
Writing /usr/local/lib/python2.7/dist-packages/nipype-0.9.1.egg-info
running install_clib
customize UnixCCompiler
---------- COMPILING LATEST CMAKE... ---------
--2014-07-03 12:21:24-- http://www.cmake.org/files/v2.8/cmake-2....
Resolving http://www.cmake.org (www.cmake.org)... 66.194.253.19
Connecting to http://www.cmake.org (www.cmake.org)|66.194.253.19|:80... connected.
HTTP request sent, awaiting response... 200 OK
Length: 6068231 (5,8M) [application/x-gzip]
Saving to: 'cmake-2.8.12.2.tar.gz.1'
100%[======================================>] 6.068.231 91,1KB/s in 4m 6s
2014-07-03 12:25:32 (24,1 KB/s) - 'cmake-2.8.12.2.tar.gz.1' saved [6068231/6068231]
---------------------------------------------
CMake 2.8.12.2, Copyright 2000-2012 Kitware, Inc.
C compiler on this system is: cc
---------------------------------------------
Error when bootstrapping CMake:
Cannot find appropriate C++ compiler on this system.
Please specify one using environment variable CXX.
See cmake_bootstrap.log for compilers attempted.
---------------------------------------------
Log of errors: /home/riccardo/Downloads/cpac/CPAC-Downloads/cmake-2.8.12.2/Bootstrap.cmk/cmake_bootstrap.log
---------------------------------------------
make: *** No targets specified and no makefile found. Stop.
make: *** No rule to make target 'install'. Stop.
---------- INSTALLING ANTs... ----------
fatal: destination path 'ants-src' already exists and is not an empty directory.
mkdir: cannot create directory '/opt/ants': File exists
./cpac_install_v0.2.sh: line 127: /opt/cmake/bin/cmake: No such file or directory
make: *** No targets specified and no makefile found. Stop.
########## ACQUIRING CPAC IMAGE RESOURCES... ##########
--2014-07-03 12:25:33-- http://fcon_1000.projects.nitrc.org/indi...
Resolving fcon_1000.projects.nitrc.org (fcon_1000.projects.nitrc.org)... 132.239.16.23
Connecting to fcon_1000.projects.nitrc.org (fcon_1000.projects.nitrc.org)|132.239.16.23|:80... connected.
HTTP request sent, awaiting response... 200 OK
Length: 2401956 (2,3M) [application/zip]
Saving to: 'cpac_image_resources.zip.1'
100%[======================================>] 2.401.956 18,9KB/s in 67s
2014-07-03 12:26:41 (35,2 KB/s) - 'cpac_image_resources.zip.1' saved [2401956/2401956]
...
########## INSTALLING CPAC... ##########
--2014-07-03 12:26:49-- https://github.com/FCP-INDI/C-PAC/archiv...
Resolving github.com (github.com)... 192.30.252.129
Connecting to github.com (github.com)|192.30.252.129|:443... connected.
HTTP request sent, awaiting response... 302 Found
Location: https://codeload.github.com/FCP-INDI/C-P... [following]
--2014-07-03 12:26:54-- https://codeload.github.com/FCP-INDI/C-P...
Resolving codeload.github.com (codeload.github.com)... 192.30.252.147
Connecting to codeload.github.com (codeload.github.com)|192.30.252.147|:443... connected.
HTTP request sent, awaiting response... 200 OK
Length: unspecified [application/zip]
Saving to: 'master.zip.1'
[ <=> ] 11.563.471 58,1KB/s
....
running install_egg_info
Writing /usr/local/lib/python2.7/dist-packages/CPAC-0.3.3.dev.egg-info
running install_clib
customize UnixCCompiler
########## CLEANING UP... ##########
Reading package lists... Done
Building dependency tree
Reading state information... Done
0 upgraded, 0 newly installed, 0 to remove and 23 not upgraded.
chmod: cannot access '/home/riccardo/.matplotlib': No such file or directory
---------------------------------------------------------------------------------------------
run cpac_gui:
Traceback (most recent call last):
File "/usr/local/bin/cpac_gui", line 3, in
import CPAC
File "/usr/local/lib/python2.7/dist-packages/CPAC/__init__.py", line 18, in
import anat_preproc, \
File "/usr/local/lib/python2.7/dist-packages/CPAC/anat_preproc/__init__.py", line 1, in
from anat_preproc import create_anat_preproc
File "/usr/local/lib/python2.7/dist-packages/CPAC/anat_preproc/anat_preproc.py", line 3, in
from nipype.interfaces.afni import preprocess
File "/usr/local/lib/python2.7/dist-packages/nipype/__init__.py", line 77, in
from pipeline import Node, MapNode, JoinNode, Workflow
File "/usr/local/lib/python2.7/dist-packages/nipype/pipeline/__init__.py", line 8, in
from engine import Node, MapNode, JoinNode, Workflow
File "/usr/local/lib/python2.7/dist-packages/nipype/pipeline/engine.py", line 45, in
from ..interfaces.base import (traits, InputMultiPath, CommandLine,
File "/usr/local/lib/python2.7/dist-packages/nipype/interfaces/__init__.py", line 12, in
import fsl, spm, freesurfer, afni, ants, slicer, dipy, nipy, mrtrix, camino
File "/usr/local/lib/python2.7/dist-packages/nipype/interfaces/mrtrix/__init__.py", line 14, in
from .convert import MRTrix2TrackVis
File "/usr/local/lib/python2.7/dist-packages/nipype/interfaces/mrtrix/convert.py", line 32, in
from dipy.tracking.utils import move_streamlines, affine_from_fsl_mat_file
ImportError: No module named utils
Jul 3, 2014 05:07 PM | Riccardo Navarra - ITAB - Università G D'Annunzio, Chieti
autoRE :) : error on cpac_gui (mint 17 x64)
[SOLVED]: need to install dipy from git (> 0.7.0) not ubuntu
repository (0.5.0)