Audit tools for too short filename buffers

[gdevenyi]

A number of pipelines use the same underlying tools, which have a broken filename length of 255 minc-toolkit minc-tools CIVET

Check and correct these files using:

find . -type f \( -name '*.c' -o -name '*.h' \)  -exec grep -E -n -i -H '.*file.*\[0*([1-9][0-9]{1,2}|10[01][0-9]|102[0-3])\]' {} \;