Daric V comments

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                                            Daric V

Error parsing iprscan.xml during funannotate annotate, after local iprscan run

I have the same issue. I have installed a local copy of interproscan and have set $INTERPROSH shell variable with local interproscan.sh path. If I understand you correctly, the local...

During pipeline sam2bam

This is due to a bug in 0.24 miR_PREFeR.py script. Lines 706 and 707 in miR_PREFeR.py should probably be something like: command2 = "samtools sort "+ bamfile + " -o...

Issues with multiple transcripts: MEROPs, BUSCO, PFAM and dbCAN/CAZyme annotations missing for T2 transcripts from final annotation file

I also encountered a similar problem with the annotation step. I ran Eggnog-mapper and InterProScan locally. In the resulting GFF file, the EC_number, EggNog, COG, CAZyme .... annotations are completely...

BUG: Cyclic dependency on rule samtools_sort

Hi @Maarten-vd-Sande , Thank you so much for your quick response! You were absolutely right—changing the aligner name to lowercase star resolved the issue. I initially used uppercase STAR because...