Mercurial > repos > iuc > funannotate_annotate
view test-data/predict_bam/Genus_species.discrepency.report.txt @ 5:9feee7fc49a1 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/funannotate commit 2589d2785ca90160a22a5fe14e03311e189ea51d
| author | iuc |
|---|---|
| date | Thu, 13 Apr 2023 17:13:04 +0000 |
| parents | a5baa4ff168d |
| children |
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Discrepancy Report Results Summary DISC_PROTEIN_NAMES:All proteins have same name "hypothetical protein" DISC_SOURCE_QUALS_ASNDISC:taxname (all present, all same) DISC_FEATURE_COUNT:gene: 18 present DISC_FEATURE_COUNT:CDS: 18 present DISC_FEATURE_COUNT:mRNA: 18 present DISC_COUNT_NUCLEOTIDES:4 nucleotide Bioseqs are present JOINED_FEATURES:30 features have joined locations. NO_ANNOTATION:2 bioseqs have no features DISC_QUALITY_SCORES:Quality scores are missing on all sequences. FATAL: DISC_BACTERIAL_PARTIAL_NONEXTENDABLE_PROBLEMS:2 features have partial ends that do not abut the end of the sequence or a gap, and cannot be extended by 3 or fewer nucleotides to do so ONCALLER_COMMENT_PRESENT:4 comment descriptors were found (all same) MISSING_GENOMEASSEMBLY_COMMENTS:4 bioseqs are missing GenomeAssembly structured comments MOLTYPE_NOT_MRNA:4 molecule types are not set as mRNA. TECHNIQUE_NOT_TSA:4 technique are not set as TSA MISSING_STRUCTURED_COMMENT:4 sequences do not include structured comments. MISSING_PROJECT:22 sequences do not include project. DISC_INCONSISTENT_MOLINFO_TECH:Molinfo Technique Report (some missing, all same) Detailed Report DiscRep_ALL:DISC_PROTEIN_NAMES::All proteins have same name "hypothetical protein" DiscRep_ALL:DISC_SOURCE_QUALS_ASNDISC::taxname (all present, all same) DiscRep_SUB:DISC_SOURCE_QUALS_ASNDISC::4 sources have 'Genus species' for taxname DiscRep_ALL:DISC_FEATURE_COUNT::gene: 18 present DiscRep_ALL:DISC_FEATURE_COUNT::CDS: 18 present DiscRep_ALL:DISC_FEATURE_COUNT::mRNA: 18 present DiscRep_ALL:DISC_COUNT_NUCLEOTIDES::4 nucleotide Bioseqs are present genome:sample (length 215740) genome:sample2 (length 2030) genome:sample3 (length 2100) genome:sample4 (length 7560) DiscRep_ALL:JOINED_FEATURES::30 features have joined locations. DiscRep_SUB:JOINED_FEATURES::30 features have joined location but no exception genome:mRNA hypothetical protein (sample4:2126-2199, 2258-3224, 3284->3537) FUN_000018 genome:CDS hypothetical protein (sample4:2126-2199, 2258-3224, 3284->3537) FUN_000018 genome:mRNA hypothetical protein (sample:c5802-5797, c5539-4883) FUN_000002 genome:CDS hypothetical protein (sample:c5802-5797, c5539-4883) FUN_000002 genome:mRNA hypothetical protein (sample:c10557-10549, c10462-8696) FUN_000003 genome:CDS hypothetical protein (sample:c10557-10549, c10462-8696) FUN_000003 genome:CDS hypothetical protein (sample:c15214-15209, c14648-14247) FUN_000004 genome:mRNA hypothetical protein (sample:c15214-15209, c14648-14247) FUN_000004 genome:mRNA hypothetical protein (sample:c21705-21700, c21515-19533) FUN_000005 genome:CDS hypothetical protein (sample:c21705-21700, c21515-19533) FUN_000005 genome:CDS hypothetical protein (sample:40223-40396, 40659-41193, 41707-42080, 43409-43609, 43678-44130) FUN_000007 genome:mRNA hypothetical protein (sample:40223-40396, 40659-41193, 41707-42080, 43409-43609, 43678-44130) FUN_000007 genome:CDS hypothetical protein (sample:c47195-46753, c46330-46214, c46157-45527) FUN_000008 genome:mRNA hypothetical protein (sample:c47195-46753, c46330-46214, c46157-45527) FUN_000008 genome:CDS hypothetical protein (sample:c79527-79519, c79068-78685) FUN_000009 genome:mRNA hypothetical protein (sample:c79527-79519, c79068-78685) FUN_000009 genome:mRNA hypothetical protein (sample:87202-87207, 88054-88320) FUN_000010 genome:CDS hypothetical protein (sample:87202-87207, 88054-88320) FUN_000010 genome:CDS hypothetical protein (sample:133587-134504, 134720-135510, 135569-136284, 137516-137862) FUN_000011 genome:mRNA hypothetical protein (sample:133587-134504, 134720-135510, 135569-136284, 137516-137862) FUN_000011 genome:CDS hypothetical protein (sample:144294-144551, 149012-149244, 149367-149588, 149654-149897, 149952-150112, 150174-150248, 151966-152072, 152314-152429, 152496-152751, 153296-153630, 153689-155122, 155789-158975, 159190-164495) FUN_000012 genome:mRNA hypothetical protein (sample:144294-144551, 149012-149244, 149367-149588, 149654-149897, 149952-150112, 150174-150248, 151966-152072, 152314-152429, 152496-152751, 153296-153630, 153689-155122, 155789-158975, 159190-164495) FUN_000012 genome:CDS hypothetical protein (sample:167121-168360, 168722-169212) FUN_000013 genome:mRNA hypothetical protein (sample:167121-168360, 168722-169212) FUN_000013 genome:CDS hypothetical protein (sample:c178916-178873, c177172-176887, c176824-176699) FUN_000014 genome:mRNA hypothetical protein (sample:c178916-178873, c177172-176887, c176824-176699) FUN_000014 genome:CDS hypothetical protein (sample:192004-192067, 193549-193658, 194041-194455, 194518-194669) FUN_000015 genome:mRNA hypothetical protein (sample:192004-192067, 193549-193658, 194041-194455, 194518-194669) FUN_000015 genome:CDS hypothetical protein (sample:c210553-210548, c210474-209044) FUN_000016 genome:mRNA hypothetical protein (sample:c210553-210548, c210474-209044) FUN_000016 DiscRep_ALL:NO_ANNOTATION::2 bioseqs have no features genome:sample2 (length 2030) genome:sample3 (length 2100) DiscRep_ALL:DISC_QUALITY_SCORES::Quality scores are missing on all sequences. FATAL: DiscRep_ALL:DISC_BACTERIAL_PARTIAL_NONEXTENDABLE_PROBLEMS::2 features have partial ends that do not abut the end of the sequence or a gap, and cannot be extended by 3 or fewer nucleotides to do so genome:CDS hypothetical protein sample:<2331-3254 FUN_000001 genome:CDS hypothetical protein (sample4:2126-2199, 2258-3224, 3284->3537) FUN_000018 DiscRep_ALL:ONCALLER_COMMENT_PRESENT::4 comment descriptors were found (all same) genome:sample:"Annotated using 1.8.7" genome:sample2:"Annotated using 1.8.7" genome:sample3:"Annotated using 1.8.7" genome:sample4:"Annotated using 1.8.7" DiscRep_ALL:MISSING_GENOMEASSEMBLY_COMMENTS::4 bioseqs are missing GenomeAssembly structured comments genome:sample (length 215740) genome:sample2 (length 2030) genome:sample3 (length 2100) genome:sample4 (length 7560) DiscRep_ALL:MOLTYPE_NOT_MRNA::4 molecule types are not set as mRNA. genome:sample (length 215740) genome:sample2 (length 2030) genome:sample3 (length 2100) genome:sample4 (length 7560) DiscRep_ALL:TECHNIQUE_NOT_TSA::4 technique are not set as TSA genome:sample (length 215740) genome:sample2 (length 2030) genome:sample3 (length 2100) genome:sample4 (length 7560) DiscRep_ALL:MISSING_STRUCTURED_COMMENT::4 sequences do not include structured comments. genome:sample (length 215740) genome:sample2 (length 2030) genome:sample3 (length 2100) genome:sample4 (length 7560) DiscRep_ALL:MISSING_PROJECT::22 sequences do not include project. genome:sample (length 215740) genome:ncbi:FUN_000001-T1 (length 307) genome:ncbi:FUN_000002-T1 (length 220) genome:ncbi:FUN_000003-T1 (length 591) genome:ncbi:FUN_000004-T1 (length 135) genome:ncbi:FUN_000005-T1 (length 662) genome:ncbi:FUN_000006-T1 (length 278) genome:ncbi:FUN_000007-T1 (length 578) genome:ncbi:FUN_000008-T1 (length 396) genome:ncbi:FUN_000009-T1 (length 130) genome:ncbi:FUN_000010-T1 (length 90) genome:ncbi:FUN_000011-T1 (length 923) genome:ncbi:FUN_000012-T1 (length 3977) genome:ncbi:FUN_000013-T1 (length 576) genome:ncbi:FUN_000014-T1 (length 151) genome:ncbi:FUN_000015-T1 (length 246) genome:ncbi:FUN_000016-T1 (length 478) genome:sample2 (length 2030) genome:sample3 (length 2100) genome:sample4 (length 7560) genome:ncbi:FUN_000017-T1 (length 124) genome:ncbi:FUN_000018-T1 (length 432) DiscRep_ALL:DISC_INCONSISTENT_MOLINFO_TECH::Molinfo Technique Report (some missing, all same) DiscRep_SUB:DISC_INCONSISTENT_MOLINFO_TECH::technique (all missing) DiscRep_SUB:DISC_INCONSISTENT_MOLINFO_TECH::4 Molinfos are missing field technique genome:sample (length 215740) genome:sample2 (length 2030) genome:sample3 (length 2100) genome:sample4 (length 7560)