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Error when result folder is not in source folder #55

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Nesper94 opened this issue Jul 1, 2024 · 0 comments
Open

Error when result folder is not in source folder #55

Nesper94 opened this issue Jul 1, 2024 · 0 comments

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@Nesper94
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Nesper94 commented Jul 1, 2024

Hi! Thank you very much for CRISPRCasFinder. I have installed the software by using conda following the instructions on this repository and I noticed a subtle issue:

When the result folder is not in the same folder as the CRISPRCasFinder script, the software complains telling that some file does not exists. So for example running this example command:

conda activate crisprcasfinder

./CRISPRCasFinder.pl \
	-i install_test/sequence.fasta \
	-out ../results \
	-cas \
	> crisprCasFinder_out.txt \
	2> crisprCasFinder_err.txt

gives the error Could not open output GFF in ../results/ because No such file or directory I will not create the GFF file.. Full stderr is attached:
crisprCasFinder_err.txt

However, running the following gives no errors:

conda activate crisprcasfinder

./CRISPRCasFinder.pl \
	-i install_test/sequence.fasta \
	-out results \
	-cas \
	> crisprCasFinder_out.txt \
	2> crisprCasFinder_err.txt

Thank you very much for your help.

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