Closed GabrieleRigano99 closed 2 days ago
Are you using the latest release? i am using the latest release 1.8.17
Describe the bug annotations.antismash.txt file empty using Antismash 7.1 online
What command did you issue? funannotate annotate --gff final_structural.gff3 --fasta ../../annotazioni_scriptate/maskedSS01.fa -s "Sporothrix schenckii" -o functional01 -a KOs_SS01.tsv --eggnog eggnog.emapper.annotations --iprscan IPRscan.XML --phobius phobius.txt --signalp signalp_op/prediction_results.txt --strain SS01 --busco_db sordariomycetes --cpus 12 --antismash maskedSS01.gbk
Logfiles funannotate-annotate.log
OS/Install Information ubuntu 20.04
maskedSS01.gbk file where smCOG is present CDS complement(join(156812..157412,157481..158271, 159083..159115)) /Name="input.path1.gene44" /gene="input.path1.gene44" /gene_functions="biosynthetic-additional (smcogs) SMCOG1080:lysine/ornithine N-monooxygenase (Score: 477.1; E-value: 7.1e-145)" /gene_kind="biosynthetic-additional" /source="GlimmerHMM" /transl_table=1 /translation="MSPFRNAQLKMSRLRPAVPDEVQDLICVGFGPASLAVAVAVHDAL EAGTLAAPPKILFLEKQHGFAWHAGMLLPGAKMQISYIKDLATLRNPRSAFTFTNYLHE NGRLVDFTNLGTFLPARAEYEDYLRWCASSFDESVIYDREVLAVDADVQNGQKIQKTAD DTVSTFRVLARDVTSGREQLYRAHNVLIATGGKPSLPVCLSASHPRVIHSSQFAHLVPT ILDNQQAPYRVAVVGAGQSAAEIFNNIQELYPNSQTFLVMRSEFLRPSDDSPFVNSIFN PEYIDSLYPKPASYRRNLLVDARPTNYGVVRLELIEHLYDRMYHQRRKLGTDEKKWPHR ILGSTQVARVDPGEKDALRLVVEPVQSGTSAETEVLEVDLVIAATGYERNSHVTMLKGL WPLLPETEAKKATNGTDDDSIGTWEVNDTTASDGASPTKMLRVARDYHVEFDTTRIEPG SGIWLQGCCEGTHGVR"
[05/22/24 12:13:22]: Now parsing antiSMASH v7 results, finding SM clusters [05/22/24 12:13:22]: Found 26 clusters, 0 biosynthetic enyzmes, and 0 smCOGs predicted by antiSMASH
Problem solved: query .gbk (can't have more than 1 isoform per gene though) and not genome .fasta to antismash online
Are you using the latest release? i am using the latest release 1.8.17
Describe the bug annotations.antismash.txt file empty using Antismash 7.1 online
What command did you issue? funannotate annotate --gff final_structural.gff3 --fasta ../../annotazioni_scriptate/maskedSS01.fa -s "Sporothrix schenckii" -o functional01 -a KOs_SS01.tsv --eggnog eggnog.emapper.annotations --iprscan IPRscan.XML --phobius phobius.txt --signalp signalp_op/prediction_results.txt --strain SS01 --busco_db sordariomycetes --cpus 12 --antismash maskedSS01.gbk
Logfiles funannotate-annotate.log
OS/Install Information ubuntu 20.04
maskedSS01.gbk file where smCOG is present CDS complement(join(156812..157412,157481..158271, 159083..159115)) /Name="input.path1.gene44" /gene="input.path1.gene44" /gene_functions="biosynthetic-additional (smcogs) SMCOG1080:lysine/ornithine N-monooxygenase (Score: 477.1; E-value: 7.1e-145)" /gene_kind="biosynthetic-additional" /source="GlimmerHMM" /transl_table=1 /translation="MSPFRNAQLKMSRLRPAVPDEVQDLICVGFGPASLAVAVAVHDAL EAGTLAAPPKILFLEKQHGFAWHAGMLLPGAKMQISYIKDLATLRNPRSAFTFTNYLHE NGRLVDFTNLGTFLPARAEYEDYLRWCASSFDESVIYDREVLAVDADVQNGQKIQKTAD DTVSTFRVLARDVTSGREQLYRAHNVLIATGGKPSLPVCLSASHPRVIHSSQFAHLVPT ILDNQQAPYRVAVVGAGQSAAEIFNNIQELYPNSQTFLVMRSEFLRPSDDSPFVNSIFN PEYIDSLYPKPASYRRNLLVDARPTNYGVVRLELIEHLYDRMYHQRRKLGTDEKKWPHR ILGSTQVARVDPGEKDALRLVVEPVQSGTSAETEVLEVDLVIAATGYERNSHVTMLKGL WPLLPETEAKKATNGTDDDSIGTWEVNDTTASDGASPTKMLRVARDYHVEFDTTRIEPG SGIWLQGCCEGTHGVR"
[05/22/24 12:13:22]: Now parsing antiSMASH v7 results, finding SM clusters [05/22/24 12:13:22]: Found 26 clusters, 0 biosynthetic enyzmes, and 0 smCOGs predicted by antiSMASH