Problems with installer_script.sh

[geowk]

Helllo,

I'm ran into some issues with the installer_script.sh for mindboggle.

We are currently using linux, ubuntu 14.04.

We've run each command in the installer script line by line.

For line 159:

pip install nibabel prov xvfbwrapper traits

Everything works except for the following:

Collecting trait Could not find a version that satisfies the requirement trait (from versions: ) No matching distribution found for trait

The command lines up until line 191 work.

When we try this step on line 190:

cmake ../ -DVTK_DIR:STRING=$VTK_DIR

It works.

However, the next command line:

make

gives the following output:

% make [ 7%] Built target VtkFileEditor [ 15%] Built target PointAreaComputer [ 23%] Built target Overlap [ 30%] Built target TravelDepth [ 38%] Built target GradientComputer [ 46%] Built target MeshAnalyser [ 53%] Built target FsSurfaceReader make[2]: No rule to make target /usr/lib/x86_64-linux-gnu/libtbb.so.2', needed bytravel_depth/TravelDepthMain'. Stop. make[1]: [travel_depth/CMakeFiles/TravelDepthMain.dir/all] Error 2 make: *** [all] Error 2

Any help would greatly be appreciated.

Thanks.

d.m.

[knutj]

I have the same problem on Fedora 25

[binarybottle]

Just curious -- Why not just use the mindboggle docker rather than install everything from scratch?

I believe when you tried to copy line 159, "pip install nibabel prov xvfbwrapper traits" you missed the final letter "s" because your error is related to "trait" instead of "traits".

As for the "No rule to make target /usr/lib/x86_64-linux-gnu/libtbb.so.2" error, the installation script (https://github.com/nipy/mindboggle/blob/master/install/install_mindboggle.sh) has lines to fix paths to Linux libraries using symbolic links -- perhaps these need to be changed to reflect paths on your system?

[binarybottle]

@geowk and @knutj -- did the above resolve your problem?

[binarybottle]

@geowk and @knutj -- are you still having an issue using the installation script, or have you tried the docker container?

[knutj]

I going to USE docker but fedora docker is installer differently than Mac docker.

[binarybottle]

Please tell us how your fedora docker experience goes!

[binarybottle]

@knutj -- Did the fedora docker installation work?

[knutj]

I have som trouble with permission on that I do not have permission to work in docker image which is stored in /var/lib/docker=HOST.

[binarybottle]

@knutj -- Did fixing your permissions as in issue #139 solve the problem here too?

[binarybottle]

@knutj -- Shall I close this issue, or are you still having trouble with permissions?

[binarybottle]

@geowk -- Did you ever successfully resolve your issue with the installer script, did you instead use the docker image, or did you move on? Your experience could be helpful for others in the community.

[binarybottle]

@satra -- Do you think that I should keep this installer script as is (unchanged for 2 years), document it as "deprecated" and point people to neurodocker.sh, or simply remove it to reduce confusion?

[satra]

@binarybottle - i think at this point we could just rely on neurodocker.sh.