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marbl / Krona

Interactively explore metagenomes and more from a web browser.
https://github.com/marbl/Krona/wiki
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can't locate kronatools.pm #188

Open vappiah opened 1 year ago

vappiah commented 1 year ago

Hi Developers,

I installed Kronatools as root on a system so that different users can use it. I tried running ktImportTaxonomy using a regular user account and I got this error message

Can't locate KronaTools.pm /opt/apps/kronatools/KronaTools-2.8.1/scripts/../lib/KronaTools.pm: Permission denied at /opt/apps/kronatools/KronaTools-2.8.1/bin/ktImportTaxonomy line 17 Begin failed--compilation aborted at /opt/apps/kronatools/KronaTools-2.8.1/bin/ktImportTaxonomy line 17

I tried setting execution permissions but the error message still persists. Please advice

dgslos commented 10 months ago

Check the file permissions on /opt/apps/kronatools/KronaTools-2.8.1/bin/ktImportTaxonomy: ls -l /opt/apps/kronatools/KronaTools-2.8.1/bin/ktImportTaxonomy If it is not executable, do a chmod on /opt/apps/kronatools/KronaTools-2.8.1/bin/ktImportTaxonomy

vappiah commented 7 months ago

Hi @dglos. Here is what I did not I extracted krona tools to /opt/apps/kronatools/2.8.1

Then installed krona using this command ./install.pl --prefix /opt/apps/kronatools/2.8.1

When I tried to run ktImportTaxonomy it gave this error Can't locate KronaTools.pm in @INC (@INC contains: /home/ha/apps/bioinfo/kronatools/2.8.1/scripts/../lib

But if I do ls, I see the KronaTools.pm file there.

I have also changed the permission (chmod +x /home/ha/apps/bioinfo/kronatools/2.8.1/scripts/../lib/KronaTools.pm

But the error message still persists. Please advice

vappiah commented 7 months ago

I resolved it now.

First I had to load another perl version.

Then I did chmod -R 777 on the lib, src and scripts directories.