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DerKevinRiehl / transposon_annotation_reasonaTE

Transposon annotation tool "resonaTE" (part of TransposonUltimate)
GNU General Public License v3.0
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sh: 1: RepeatMasker: not found #18

Open yh1126611 opened 1 year ago

yh1126611 commented 1 year ago

I'm keep getting the following error when I try to run repeatMasker through reasonaTE: sh: 1: RepeatMasker: not found I did install RepeatMasker, not through conda but through actually downloading binary codes and all its dependencies and prerequisites. (Therefore, I run RepeatMasker not by calling the software using RepeatMasker ... but by calling it using ./RepeatMasker after actually going to the directory where its executable is installed. I tried running reasonaTE in the folder where the RepeatMasker executable is installed at, but still with the same result.

DerKevinRiehl commented 1 year ago

Hello yh1126611 thanks for your interest in this software.

Hum, can you maybe write following in your console and let me know what you get as result?

which RepeatMasker

Besides, it could make sense to add your installation of RepeatMasker to your bashRC so that the command "RepeatMasker" is available, and thus repeatMasker can just call it? To do so, you could edit your file ~/.bashrc in any editor of your choice and add following line to it and save it.

export PATH="/Directory:$PATH"

where Directory is the installation directory of RepeatMasker.

Afterwards restart the terminal and try which RepeatMasker again to see if it is available now and then you should be able to try with repeatmasker.

Ramkyeri commented 1 year ago

I'm keep getting the following error when I try to run repeatMasker through reasonaTE: sh: 1: RepeatMasker: not found I did install RepeatMasker, not through conda but through actually downloading binary codes and all its dependencies and prerequisites. (Therefore, I run RepeatMasker not by calling the software using RepeatMasker ... but by calling it using ./RepeatMasker after actually going to the directory where its executable is installed. I tried running reasonaTE in the folder where the RepeatMasker executable is installed at, but still with the same result.

@yh1126611 did you follow Kevin suggestion, what was results?

I do not know where to install the RepeatMasker.