svincibo/app-mergetck

Merge multiple TCK files into one TCK file.

app-mergetck's Issues

Make a new branch for the 2-tck version

Hey @svincibo,

I'd recommend just making a second branch for your 2-tck version instead of trying to come up with a bunch of switch cases. You can just point the app to the new branch.

Let me know if you would like help doing this.

Thanks,
Brad

Compiling to allow people to run via singularity

I think it would be helpful to compile the matlab code so this app can run on systems that aren't IU HPC. This is what we've been doing with the other apps using matlab code.

See https://github.com/brainlife/app-trekker-roi-tracking/blob/master/compile.sh for an example on how to compile.

Once it's compiled, you'll then need to modify the 'main' file. See https://github.com/brainlife/app-trekker-roi-tracking/blob/master/main for an example on how to run via singularity and what the main file should look like.

Reference to non-existent field 'max_num_seeds'.

I am seeing this error message.

Reference to non-existent field 'max_num_seeds'.

Error in mergeTCK (line 38)
        count_seed = tck_temp.max_num_seeds;
}

I am feeding a tck file with the following header

mrtrix tracks    
dimensions: (145, 174, 145)
mrtrix_version: 3.0_RC3
timestamp: 1556587653.3208506107
voxel_order: RAS
voxel_sizes: [ 1.25  1.25  1.25]
datatype: Float32LE
file: . 240
count: 144000
total_count: 144000
END

I think some .tck filess doesn't have max_num_seeds set... Can you update it so that it can handle such cases?

Output failing to archive

Hey Sophia,

It looks like the output from this app is failing to archive. Brainlife is expecting the output to be in a directory called "track", yet it looks like everything is being dumped into a folder called output.

Brad