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Top Forums UNIX for Beginners Questions & Answers Finding and renaming files with exceptions Post 302970467 by azurite on Wednesday 6th of April 2016 09:47:37 PM
Old 04-06-2016
Hello,

Wow! Thank you for taking the time to write great explanations! I have printed it out and will re-read everything to really understand it.

Instead of creating new threads, is it okay if I keep posting new questions in this thread?

If so, I have a question on creating variables. I have tried to research and come up with a solution (to the text quoted below) on my own but I do not know if I am on the right track. If possible could you tell me if I am moving in the right direction?

Quote:
So as far as trying to distinguish between "100_eddy_corrected_brain.nii.gz" and "100_eddy_corrected_brain_mask.nii.gz" if you could define the first as a variable, say $eddy_file or something of the sort, you could pipe it through to a cut command defining a period as your delimiter and take everything in front of it, so something like:
{echo $eddy_file | cut -d. -f1}_mask.nii.gz

But that would depend on using the "set" command to create the variable.
I have come up with the following: though I am not sure what is meant by using the 'set' command.

Code:
#/bin/bash
eddy_file=`cat eddy_corrected_brain.txt`
echo $eddy_file

The eddy_corrected_brain.txt is a text file with pathnames of all the files that match eddy_corrected_brain.nii.gz from the initial find command/results.

Thank you again!
 

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MCVERTER(1)							   User Commands						       MCVERTER(1)

NAME
mcverter - non-interactive MRI conversion software SYNOPSIS
mcverter -o <str> -f <str> [-x] [-d] [-a] [-n] [-b] [-u] [-s <num>] [-m <str>] [-F <str>] [-r] [-v] [-i] [-h] Input directory or file(s)... DESCRIPTION
-o, --output=<str> Output directory for converted files -f, --format=<str> Output format: fsl, spm, meta, nifti, analyze, or bv -x Save each series to a separate directory -d Save output volumes as 4D files -a Save header only (metaimage only) -n, --nii Save files as .nii (nifti/fsl only) -b, --v16 Save .v16 files (BrainVoyager only) -u Use patient id instead of patient name for output file -s, --skip=<num> Skip first n volumes -m, --match=<str> Only convert files whose series descriptions include this string -F, --fnformat=<str> Use this format for name of output file: +/- PatientName, PatientId, SeriesDate, SeriesTime, StudyId, StudyDescription, SeriesNum- ber, SequenceName, ProtocolName, SeriesDescription -r, --rescale Apply rescale slope and intercept to data -v, --verbose Verbose mode -i, --version Version info -h, --help Display help SEE ALSO
The full documentation for mcverter is maintained as a Texinfo manual. If the info and mcverter programs are properly installed at your site, the command info mcverter should give you access to the complete manual. mcverter 2.0.235 March 2012 MCVERTER(1)
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