Mercurial > repos > iuc > busco
changeset 16:bb935709506a draft
planemo upload commit f7f94fe1eccafe1e29657bbd79197b4b32e03ffe
line wrap: on
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--- a/busco.xml Mon Apr 11 09:02:11 2022 +0000 +++ b/busco.xml Thu Jan 12 13:28:58 2023 +0000 @@ -1,11 +1,11 @@ <tool id="busco" name="Busco" profile="20.01" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@"> <description>assess genome assembly and annotation completeness</description> + <macros> + <import>macros.xml</import> + </macros> <xrefs> <xref type="bio.tools">busco</xref> </xrefs> - <macros> - <import>macros.xml</import> - </macros> <requirements> <requirement type="package" version="@TOOL_VERSION@">busco</requirement> <requirement type="package" version="1.34">tar</requirement> @@ -13,16 +13,21 @@ </requirements> <version_command>busco --version</version_command> <command><![CDATA[ + +#if $busco_mode.mode == 'geno' and $busco_mode.use_augustus.use_augustus_selector == 'yes': + if [ -z "\$AUGUSTUS_CONFIG_PATH" ] ; then BUSCO_PATH=\$(dirname \$(which busco)) ; export AUGUSTUS_CONFIG_PATH=\$(realpath \${BUSCO_PATH}/../config) ; fi && cp -r "\$AUGUSTUS_CONFIG_PATH/" augustus_dir/ && export AUGUSTUS_CONFIG_PATH=`pwd`/augustus_dir/ && -#if $busco_mode.mode == 'geno' and $busco_mode.use_augustus.use_augustus_selector == 'yes' and $busco_mode.use_augustus.aug_prediction.augustus_mode == 'history': +#if $busco_mode.use_augustus.aug_prediction.augustus_mode == 'history': ## Using an augustus model from history, we need to unzip it and let augustus find it mkdir -p 'augustus_dir/species/' && tar -C 'augustus_dir/species/' -xzf '${busco_mode.use_augustus.aug_prediction.augustus_model}' && #end if +#end if + busco --in '${input}' --update-data @@ -59,6 +64,14 @@ generate_plot.py -wd BUSCO_summaries -rt specific #end if +#if $outputs and 'gff' in $outputs: + && + echo "\##gff-version 3" > busco_output.gff + && + ## gff files can be absent + cat busco_galaxy/run_*/busco_sequences/*busco_sequences/*.gff >> busco_output.gff 2> /dev/null || true +#end if + ]]> </command> <inputs> <param type="data" name="input" format="fasta" label="Sequences to analyse" help="Can be an assembled genome or transcriptome (DNA), or protein sequences from an annotated gene set." /> @@ -123,6 +136,7 @@ <option value="short_summary" selected="true">short summary text</option> <option value="missing">list with missing IDs</option> <option value="image">summary image</option> + <option value="gff">gff</option> </param> <section name="adv" title="Advanced Options" expanded="False"> @@ -141,9 +155,12 @@ <data name='summary_image' format='png' label="${tool.name} on ${on_string}: summary image" from_work_dir="BUSCO_summaries/busco_figure.png"> <filter>outputs and 'image' in outputs</filter> </data> + <data name='busco_gff' format='gff3' label="${tool.name} on ${on_string}: GFF" from_work_dir="busco_output.gff"> + <filter>outputs and 'gff' in outputs</filter> + </data> </outputs> <tests> - <test expect_num_outputs="3"> + <test expect_num_outputs="4"> <param name="input" value="genome.fa" /> <conditional name="lineage"> <param name="lineage_mode" value="select_lineage" /> @@ -155,16 +172,22 @@ <param name="use_augustus_selector" value="yes" /> </conditional> </conditional> - <param name="outputs" value="short_summary,missing" /> + <param name="outputs" value="short_summary,missing,gff" /> <output name="busco_sum" file="genome_results/short_summary" compare="diff" lines_diff="4" /> <output name="busco_table" file="genome_results/full_table" compare="diff" lines_diff="4" /> + <output name="busco_gff"> + <assert_contents> + <has_n_lines n="1"/> + <has_text text="##gff-version 3" /> + </assert_contents> + </output> <output name="busco_missing" file="genome_results/missing_buscos_list" compare="diff" lines_diff="4"> <assert_contents> <has_text text="# BUSCO version is: @TOOL_VERSION@" /> </assert_contents> </output> </test> - <test expect_num_outputs="4"> + <test expect_num_outputs="5"> <param name="input" value="proteome.fa" /> <conditional name="lineage"> <param name="lineage_mode" value="select_lineage" /> @@ -173,13 +196,19 @@ <conditional name="busco_mode"> <param name="mode" value="prot" /> </conditional> - <param name="outputs" value="short_summary,missing,image" /> + <param name="outputs" value="short_summary,missing,image,gff" /> <output name="busco_sum" file="proteome_results/short_summary" compare="diff" lines_diff="4" /> <output name="busco_table" file="proteome_results/full_table" compare="diff" lines_diff="4" /> <output name="busco_missing" file="proteome_results/missing_buscos_list" compare="diff" lines_diff="4" /> <output name="summary_image" file="proteome_results/summary.png" compare="sim_size" /> + <output name="busco_gff"> + <assert_contents> + <has_n_lines n="1"/> + <has_text text="##gff-version 3" /> + </assert_contents> + </output> </test> - <test expect_num_outputs="4"> + <test expect_num_outputs="5"> <param name="input" value="transcriptome.fa" /> <conditional name="lineage"> <param name="lineage_mode" value="select_lineage" /> @@ -188,13 +217,14 @@ <conditional name="busco_mode"> <param name="mode" value="tran" /> </conditional> - <param name="outputs" value="short_summary,missing,image" /> + <param name="outputs" value="short_summary,missing,image,gff" /> <output name="busco_sum" file="transcriptome_results/short_summary" compare="diff" lines_diff="6" /> <output name="busco_table" file="transcriptome_results/full_table" compare="diff" lines_diff="6" /> <output name="busco_missing" file="transcriptome_results/missing_buscos_list" compare="diff" lines_diff="6" /> <output name="summary_image" file="transcriptome_results/summary.png" compare="sim_size" /> + <output name="busco_gff" file="transcriptome_results/out.gff" compare="diff" /> </test> - <test expect_num_outputs="2"> + <test expect_num_outputs="3"> <param name="input" value="genome.fa" /> <conditional name="lineage"> <param name="lineage_mode" value="select_lineage" /> @@ -210,9 +240,15 @@ </conditional> </conditional> </conditional> - <param name="outputs" value="short_summary" /> + <param name="outputs" value="short_summary,gff" /> <output name="busco_sum" file="genome_results/short_summary" compare="diff" lines_diff="4" /> <output name="busco_table" file="genome_results/full_table" compare="diff" lines_diff="4" /> + <output name="busco_gff"> + <assert_contents> + <has_n_lines n="1"/> + <has_text text="##gff-version 3" /> + </assert_contents> + </output> </test> <test expect_num_outputs="3"> <param name="input" value="genome.fa" /> @@ -235,7 +271,7 @@ <output name="busco_table" file="genome_results/full_table" compare="diff" lines_diff="4" /> <output name="busco_missing" file="genome_results/missing_buscos_list" compare="diff" lines_diff="4" /> </test> - <test expect_num_outputs="4"> + <test expect_num_outputs="5"> <param name="input" value="genome.fa" /> <conditional name="lineage"> <param name="lineage_mode" value="select_lineage" /> @@ -247,13 +283,14 @@ <param name="use_augustus_selector" value="no" /> </conditional> </conditional> - <param name="outputs" value="short_summary,missing,image" /> + <param name="outputs" value="short_summary,missing,image,gff" /> <output name="busco_sum" file="genome_results_metaeuk/short_summary" compare="diff" lines_diff="6" /> <output name="busco_table" file="genome_results_metaeuk/full_table" compare="diff" lines_diff="6" /> <output name="busco_missing" file="genome_results_metaeuk/missing_buscos_list" compare="diff" lines_diff="6" /> <output name="summary_image" file="genome_results_metaeuk/summary.png" compare="sim_size" /> + <output name="busco_gff" file="genome_results_metaeuk/out.gff" compare="diff" /> </test> - <test expect_num_outputs="4"> + <test expect_num_outputs="5"> <param name="input" value="genome.fa" /> <conditional name="lineage"> <param name="lineage_mode" value="auto_detect" /> @@ -265,11 +302,12 @@ <param name="use_augustus_selector" value="no" /> </conditional> </conditional> - <param name="outputs" value="short_summary,missing,image" /> + <param name="outputs" value="short_summary,missing,image,gff" /> <output name="busco_sum" file="genome_results_metaeuk_auto/short_summary" compare="diff" lines_diff="6" /> <output name="busco_table" file="genome_results_metaeuk_auto/full_table" compare="diff" lines_diff="2" /> <output name="busco_missing" file="genome_results_metaeuk_auto/missing_buscos_list" compare="diff" lines_diff="2" /> <output name="summary_image" file="genome_results_metaeuk_auto/summary.png" compare="sim_size" /> + <output name="busco_gff" file="genome_results_metaeuk_auto/out.gff" compare="diff" /> </test> </tests> <help><![CDATA[
--- a/macros.xml Mon Apr 11 09:02:11 2022 +0000 +++ b/macros.xml Thu Jan 12 13:28:58 2023 +0000 @@ -1,6 +1,6 @@ <?xml version="1.0"?> <macros> - <token name="@TOOL_VERSION@">5.3.2</token> + <token name="@TOOL_VERSION@">5.4.4</token> <token name="@VERSION_SUFFIX@">0</token> <xml name="citations">
--- a/test-data/genome_results/full_table Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/genome_results/full_table Thu Jan 12 13:28:58 2023 +0000 @@ -1,4 +1,4 @@ -# BUSCO version is: 5.2.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013) # Busco id Status Sequence Gene Start Gene End Strand Score Length OrthoDB url Description 774at6656 Missing
--- a/test-data/genome_results/missing_buscos_list Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/genome_results/missing_buscos_list Thu Jan 12 13:28:58 2023 +0000 @@ -1,4 +1,4 @@ -# BUSCO version is: 5.2.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013) # Busco id 100070at6656
--- a/test-data/genome_results/short_summary Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/genome_results/short_summary Thu Jan 12 13:28:58 2023 +0000 @@ -1,7 +1,7 @@ -# BUSCO version is: 5.2.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013) -# Summarized benchmarking in BUSCO notation for file /tmp/tmpctznxi43/files/9/e/c/dataset_9ec37448-e146-4536-b66f-9082e1734ea4.dat -# BUSCO was run in mode: genome +# Summarized benchmarking in BUSCO notation for file /tmp/tmprqvmp912/files/000/dataset_22.dat +# BUSCO was run in mode: euk_genome_aug # Gene predictor used: augustus ***** Results: ***** @@ -14,11 +14,22 @@ 1012 Missing BUSCOs (M) 1013 Total BUSCO groups searched +Assembly Statistics: + 1 Number of scaffolds + 1 Number of contigs + 62370 Total length + 0.000% Percent gaps + 62 KB Scaffold N50 + 62 KB Contigs N50 + + Dependencies and versions: hmmsearch: 3.1 - makeblastdb: 2.12.0+ - tblastn: 2.12.0+ - augustus: 3.4.0 + bbtools: 39.01 + makeblastdb: 2.13.0+ + tblastn: 2.13.0+ + augustus: 3.5.0 gff2gbSmallDNA.pl: None new_species.pl: None etraining: None + busco: 5.4.4
--- a/test-data/genome_results_metaeuk/full_table Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/genome_results_metaeuk/full_table Thu Jan 12 13:28:58 2023 +0000 @@ -1,4 +1,4 @@ -# BUSCO version is: 5.2.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013) # Busco id Status Sequence Gene Start Gene End Strand Score Length OrthoDB url Description 774at6656 Missing
--- a/test-data/genome_results_metaeuk/missing_buscos_list Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/genome_results_metaeuk/missing_buscos_list Thu Jan 12 13:28:58 2023 +0000 @@ -1,4 +1,4 @@ -# BUSCO version is: 5.2.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013) # Busco id 100070at6656
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/genome_results_metaeuk/out.gff Thu Jan 12 13:28:58 2023 +0000 @@ -0,0 +1,13 @@ +##gff-version 3 +sample MetaEuk gene 40256 42071 198 + . Target_ID=68987at6656;TCS_ID=68987at6656|sample|+|40255 +sample MetaEuk mRNA 40256 42071 198 + . Target_ID=68987at6656;TCS_ID=68987at6656|sample|+|40255_mRNA;Parent=68987at6656|sample|+|40255 +sample MetaEuk exon 40256 40390 49 + . Target_ID=68987at6656;TCS_ID=68987at6656|sample|+|40255_exon_0;Parent=68987at6656|sample|+|40255_mRNA +sample MetaEuk CDS 40256 40390 49 + . Target_ID=68987at6656;TCS_ID=68987at6656|sample|+|40255_CDS_0;Parent=68987at6656|sample|+|40255_exon_0 +sample MetaEuk exon 40653 41168 94 + . Target_ID=68987at6656;TCS_ID=68987at6656|sample|+|40255_exon_1;Parent=68987at6656|sample|+|40255_mRNA +sample MetaEuk CDS 40653 41168 94 + . Target_ID=68987at6656;TCS_ID=68987at6656|sample|+|40255_CDS_1;Parent=68987at6656|sample|+|40255_exon_1 +sample MetaEuk exon 41718 42071 65 + . Target_ID=68987at6656;TCS_ID=68987at6656|sample|+|40255_exon_2;Parent=68987at6656|sample|+|40255_mRNA +sample MetaEuk CDS 41718 42071 65 + . Target_ID=68987at6656;TCS_ID=68987at6656|sample|+|40255_CDS_2;Parent=68987at6656|sample|+|40255_exon_2 +sample MetaEuk gene 34846 35679 545 - . Target_ID=94238at6656_7227_0:001f92;TCS_ID=94238at6656_7227_0:001f92|sample|-|34845 +sample MetaEuk mRNA 34846 35679 545 - . Target_ID=94238at6656_7227_0:001f92;TCS_ID=94238at6656_7227_0:001f92|sample|-|34845_mRNA;Parent=94238at6656_7227_0:001f92|sample|-|34845 +sample MetaEuk exon 34846 35679 545 - . Target_ID=94238at6656_7227_0:001f92;TCS_ID=94238at6656_7227_0:001f92|sample|-|34845_exon_0;Parent=94238at6656_7227_0:001f92|sample|-|34845_mRNA +sample MetaEuk CDS 34846 35679 545 - . Target_ID=94238at6656_7227_0:001f92;TCS_ID=94238at6656_7227_0:001f92|sample|-|34845_CDS_0;Parent=94238at6656_7227_0:001f92|sample|-|34845_exon_0
--- a/test-data/genome_results_metaeuk/short_summary Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/genome_results_metaeuk/short_summary Thu Jan 12 13:28:58 2023 +0000 @@ -1,7 +1,7 @@ -# BUSCO version is: 5.2.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013) -# Summarized benchmarking in BUSCO notation for file /tmp/tmpctznxi43/files/9/6/4/dataset_96441510-fb85-41dd-a4ce-8a20d74173a9.dat -# BUSCO was run in mode: genome +# Summarized benchmarking in BUSCO notation for file /tmp/tmprqvmp912/files/000/dataset_28.dat +# BUSCO was run in mode: euk_genome_met # Gene predictor used: metaeuk ***** Results: ***** @@ -14,6 +14,17 @@ 1011 Missing BUSCOs (M) 1013 Total BUSCO groups searched +Assembly Statistics: + 1 Number of scaffolds + 1 Number of contigs + 62370 Total length + 0.000% Percent gaps + 62 KB Scaffold N50 + 62 KB Contigs N50 + + Dependencies and versions: hmmsearch: 3.1 - metaeuk: 4.a0f584d + bbtools: 39.01 + metaeuk: 6.a5d39d9 + busco: 5.4.4
--- a/test-data/genome_results_metaeuk_auto/full_table Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/genome_results_metaeuk_auto/full_table Thu Jan 12 13:28:58 2023 +0000 @@ -1,4 +1,4 @@ -# BUSCO version is: 5.3.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: eukaryota_odb10 (Creation date: 2020-09-10, number of genomes: 70, number of BUSCOs: 255) # Busco id Status Sequence Gene Start Gene End Strand Score Length 39650at2759 Missing
--- a/test-data/genome_results_metaeuk_auto/missing_buscos_list Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/genome_results_metaeuk_auto/missing_buscos_list Thu Jan 12 13:28:58 2023 +0000 @@ -1,4 +1,4 @@ -# BUSCO version is: 5.3.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: eukaryota_odb10 (Creation date: 2020-09-10, number of genomes: 70, number of BUSCOs: 255) # Busco id 1001705at2759
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/genome_results_metaeuk_auto/out.gff Thu Jan 12 13:28:58 2023 +0000 @@ -0,0 +1,5 @@ +##gff-version 3 +sample MetaEuk gene 34846 35679 545 - . Target_ID=1053181at2759_7227_0:001f92;TCS_ID=1053181at2759_7227_0:001f92|sample|-|34845 +sample MetaEuk mRNA 34846 35679 545 - . Target_ID=1053181at2759_7227_0:001f92;TCS_ID=1053181at2759_7227_0:001f92|sample|-|34845_mRNA;Parent=1053181at2759_7227_0:001f92|sample|-|34845 +sample MetaEuk exon 34846 35679 545 - . Target_ID=1053181at2759_7227_0:001f92;TCS_ID=1053181at2759_7227_0:001f92|sample|-|34845_exon_0;Parent=1053181at2759_7227_0:001f92|sample|-|34845_mRNA +sample MetaEuk CDS 34846 35679 545 - . Target_ID=1053181at2759_7227_0:001f92;TCS_ID=1053181at2759_7227_0:001f92|sample|-|34845_CDS_0;Parent=1053181at2759_7227_0:001f92|sample|-|34845_exon_0
--- a/test-data/genome_results_metaeuk_auto/short_summary Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/genome_results_metaeuk_auto/short_summary Thu Jan 12 13:28:58 2023 +0000 @@ -1,7 +1,7 @@ -# BUSCO version is: 5.3.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: eukaryota_odb10 (Creation date: 2020-09-10, number of genomes: 70, number of BUSCOs: 255) -# Summarized benchmarking in BUSCO notation for file /tmp/tmp5e3tdhzs/files/c/9/b/dataset_c9b61090-5a2d-4dd0-8fd1-d147a4e1573c.dat -# BUSCO was run in mode: genome +# Summarized benchmarking in BUSCO notation for file /tmp/tmprqvmp912/files/000/dataset_34.dat +# BUSCO was run in mode: euk_genome_met # Gene predictor used: metaeuk ***** Results: ***** @@ -14,7 +14,18 @@ 254 Missing BUSCOs (M) 255 Total BUSCO groups searched +Assembly Statistics: + 1 Number of scaffolds + 1 Number of contigs + 62370 Total length + 0.000% Percent gaps + 62 KB Scaffold N50 + 62 KB Contigs N50 + + Dependencies and versions: hmmsearch: 3.1 + bbtools: 39.01 prodigal: 2.6.3 - metaeuk: 5.34c21f2 + busco: 5.4.4 + metaeuk: 6.a5d39d9
--- a/test-data/proteome_results/full_table Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/proteome_results/full_table Thu Jan 12 13:28:58 2023 +0000 @@ -1,4 +1,4 @@ -# BUSCO version is: 5.2.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013) # Busco id Status Sequence Score Length OrthoDB url Description 774at6656 Missing
--- a/test-data/proteome_results/missing_buscos_list Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/proteome_results/missing_buscos_list Thu Jan 12 13:28:58 2023 +0000 @@ -1,4 +1,4 @@ -# BUSCO version is: 5.2.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013) # Busco id 100070at6656
--- a/test-data/proteome_results/short_summary Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/proteome_results/short_summary Thu Jan 12 13:28:58 2023 +0000 @@ -1,6 +1,6 @@ -# BUSCO version is: 5.2.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013) -# Summarized benchmarking in BUSCO notation for file /tmp/tmpctznxi43/files/8/5/3/dataset_853c93b4-f61b-4a14-a96c-ade0e2f5bbbd.dat +# Summarized benchmarking in BUSCO notation for file /tmp/tmprqvmp912/files/000/dataset_6.dat # BUSCO was run in mode: proteins ***** Results: ***** @@ -15,3 +15,4 @@ Dependencies and versions: hmmsearch: 3.1 + busco: 5.4.4
--- a/test-data/transcriptome_results/full_table Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/transcriptome_results/full_table Thu Jan 12 13:28:58 2023 +0000 @@ -1,4 +1,4 @@ -# BUSCO version is: 5.2.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013) # Busco id Status Sequence Score Length OrthoDB url Description 774at6656 Missing
--- a/test-data/transcriptome_results/missing_buscos_list Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/transcriptome_results/missing_buscos_list Thu Jan 12 13:28:58 2023 +0000 @@ -1,4 +1,4 @@ -# BUSCO version is: 5.2.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013) # Busco id 100070at6656
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/transcriptome_results/out.gff Thu Jan 12 13:28:58 2023 +0000 @@ -0,0 +1,5 @@ +##gff-version 3 +BUSCOaEOG7B0HST MetaEuk gene 1 2700 1493 + . Target_ID=22364at6656_211228_0:002349;TCS_ID=22364at6656_211228_0:002349|BUSCOaEOG7B0HST|+|0 +BUSCOaEOG7B0HST MetaEuk mRNA 1 2700 1493 + . Target_ID=22364at6656_211228_0:002349;TCS_ID=22364at6656_211228_0:002349|BUSCOaEOG7B0HST|+|0_mRNA;Parent=22364at6656_211228_0:002349|BUSCOaEOG7B0HST|+|0 +BUSCOaEOG7B0HST MetaEuk exon 1 2700 1493 + . Target_ID=22364at6656_211228_0:002349;TCS_ID=22364at6656_211228_0:002349|BUSCOaEOG7B0HST|+|0_exon_0;Parent=22364at6656_211228_0:002349|BUSCOaEOG7B0HST|+|0_mRNA +BUSCOaEOG7B0HST MetaEuk CDS 1 2700 1493 + . Target_ID=22364at6656_211228_0:002349;TCS_ID=22364at6656_211228_0:002349|BUSCOaEOG7B0HST|+|0_CDS_0;Parent=22364at6656_211228_0:002349|BUSCOaEOG7B0HST|+|0_exon_0
--- a/test-data/transcriptome_results/short_summary Mon Apr 11 09:02:11 2022 +0000 +++ b/test-data/transcriptome_results/short_summary Thu Jan 12 13:28:58 2023 +0000 @@ -1,7 +1,7 @@ -# BUSCO version is: 5.2.1 +# BUSCO version is: 5.4.4 # The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013) -# Summarized benchmarking in BUSCO notation for file /tmp/tmpctznxi43/files/b/5/f/dataset_b5fc3813-7cbb-4aa0-b30c-dc2a6e85905d.dat -# BUSCO was run in mode: transcriptome +# Summarized benchmarking in BUSCO notation for file /tmp/tmprqvmp912/files/000/dataset_12.dat +# BUSCO was run in mode: euk_tran ***** Results: ***** @@ -15,4 +15,5 @@ Dependencies and versions: hmmsearch: 3.1 - metaeuk: 4.a0f584d + metaeuk: 6.a5d39d9 + busco: 5.4.4