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questions > RE: dcm2niix cannot find dicoms in files with wildcards within script
Sep 10, 2019 12:09 PM | Chris Rorden
RE: dcm2niix cannot find dicoms in files with wildcards within script
Hello
This is the intended behavior, and is consistent with other executables on your computer. Interactive and non-interactive BASH shells do not behave the same, in particular with respect to globbing. A general web search will provide more information on this. In many situations, adding "shopt -s extglob" to a script can make a non-interactive script act more like an interactive shell. You will also want to be careful how you distinguish your escape characters from file separators (use of quotes and //).
Since your question is general to Unix scripts rather than dcm2niix, you may get better advice asking this question on a more domain general forum (e.g. StackOverflow) using a less domain specific tool. Your question is beyond the scope of this forum, as this is a Unix scripting question not a dcm2niix question. I have very little expertise with Unix scripts, and that is probably true of most of the people who follow this forum.
This is the intended behavior, and is consistent with other executables on your computer. Interactive and non-interactive BASH shells do not behave the same, in particular with respect to globbing. A general web search will provide more information on this. In many situations, adding "shopt -s extglob" to a script can make a non-interactive script act more like an interactive shell. You will also want to be careful how you distinguish your escape characters from file separators (use of quotes and //).
Since your question is general to Unix scripts rather than dcm2niix, you may get better advice asking this question on a more domain general forum (e.g. StackOverflow) using a less domain specific tool. Your question is beyond the scope of this forum, as this is a Unix scripting question not a dcm2niix question. I have very little expertise with Unix scripts, and that is probably true of most of the people who follow this forum.
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Title | Author | Date |
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sciencecasey | Sep 9, 2019 | |
Chris Rorden | Sep 10, 2019 | |