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CAFS-bioinformatics / L_RNA_scaffolder

Use long transcriptome reads to scaffold genomes
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Input not recognized (?) #4

Open LemoAlex opened 3 years ago

LemoAlex commented 3 years ago

Hello L_RNA_scaffolder users,

I am trying to use the program, but I can't manage to validate the input. I have my fasta file and my blat-generated psl (noHead) files. Perl, bioperl and C++ (gcc / cc) are all installed in my server. Yet, when I do :

sh L_RNA_scaffolder.sh -d ./ -i input.psl -j gen.fasta

I get

L_RNA_scaffolder.sh: 81: L_RNA_scaffolder.sh: [[: not found

I also tried by giving full path to -d , -i, -j, but still I get the same message. I also tried by setting my Path to the L_RNA_folder (export PATH: ..../L_RNA_scaffolder/:$PATH), but it did not help.

Would there be any solution to this problem?

Cheers,

Alexandre

000generic commented 1 year ago

I have the same issue...

Thank you :) Eric