train RNA-seq mediated training ofAugustus/predict Run gene prediction pipeline fix Fix annotation errors (generate new GenBank file) update RNA-seq/PASA mediated gene model refinement remote Partial functional annotation using remote servers iprscanInterProScan5search (Docker or local) annotate Assign ...
try to fix dumb zenodo citation Oct 30, 2020 CITATION.cff Bugfix#951(#952) Aug 23, 2023 Dockerfile pin biopython<1.80; i dont have time to fix all of these nuances Feb 29, 2024 Dockerfile2 try wget for docker build install databases, not sure why failing ...
Yeah, you can edit the tbl file and then run funannotate fix -- it will archive the current data and generate new output files in place. So you shouldn't need to re-run update if this was the only error. So I guess this came out of PASA then? Was this gene present in predict ou...
Trying to fix the following kind of error found with predict tool:[Jun 14 08:11 PM]: Mapping 557,291 proteins to genome using diamond and exonerate Traceback (most recent call last): File "/usr/local/lib/python3.8/site-packages/funannotate/aux_scripts/funannotate-p2g.py", line 252, in ...
1312:1980/1is the space after the ERR accession number. I think if there is a space it parses it as if it were default Illumina header, in which the read number in default Illumina is immediately after the first space. So you might be able to fix your original names with something ...
try to fix signalp 6 parser #650 f07485f Owner nextgenusfs commented Oct 20, 2021 Okay, can you try with latest in master again and see if it prints any lines to stderr that it cannot parse? Author Dikaryotic commented Oct 21, 2021 Heya, looks like it's sort of worked. Ther...
FUN_008375-T1 FUN_008375 SP 0.000353 0.999638 CS pos: 20-21. Pr: 0.9744 Because of how version 6 is parsing the fasta headers, those annotations are not being written as a note for FUN_008375-T1. This should be an easy, isolated fix. Documenting here before I submit a pull request....
How is it possible to fix it? Thank you in advance, Michal Sorry, something went wrong. Hi, I am using diamond version 2.0.13 and according to funannotate/funannotate/aux_scripts/funannotate-p2g.py Lines 92 to 107 infa4b1e2 iflib.getDiamondVersion()>='2.0.5': ...
Hi The following problems occurred when I used Augustus. when I installed it with conda: conda install augustus=3.3.3 augustus --species=help The following error occurs:(The version of gsl is 2.6) augustus: symbol lookup error: /home/yue...