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niu-lab / msisensor2

Microsatellite instability (MSI) detection for tumor only data.
GNU General Public License v3.0
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msisensor2 requires write permission to the models directory #8

Open kmavrommatis opened 4 years ago

kmavrommatis commented 4 years ago

Hi, thanks for the great work and with msisensor2. It appears that msisensor2 requires write permission to the models directory. If it is not provided the tool does not exit with an error but instead produces output files with 0 msi. This makes it hard to work in environments where the installed tool is in a read only filesystem. Is it possible to use a different directory (e.g. ${TMPDIR}) to write, or at least issue and error and exit with an exit code when it cannot?

owehann commented 4 years ago

Thank you for your suggestion and we will take it into consideration. For most companies and research institutions, the current method is feasible. But thank you again for the advice which may help us make a progress.