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changeset 10:2dd755c1c6ff draft

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"planemo upload commit 9fa4b0e3863e3177848adddf23f6278d00fdaea1"
author iuc
date Thu, 15 Jul 2021 13:09:00 +0000
parents cf13a1e03e5b
children 0d243f458b53
files macros.xml test-data/genome_results/full_table test-data/genome_results/missing_buscos_list test-data/genome_results/short_summary test-data/genome_results_metaeuk/full_table test-data/genome_results_metaeuk/missing_buscos_list test-data/genome_results_metaeuk/short_summary test-data/genome_results_metaeuk/summary.png test-data/proteome_results/full_table test-data/proteome_results/missing_buscos_list test-data/proteome_results/short_summary test-data/proteome_results/summary.png test-data/transcriptome_results/full_table test-data/transcriptome_results/missing_buscos_list test-data/transcriptome_results/short_summary test-data/transcriptome_results/summary.png
diffstat 16 files changed, 49 insertions(+), 29 deletions(-) [+]
line wrap: on
line diff
--- a/macros.xml	Mon Mar 15 21:27:17 2021 +0000
+++ b/macros.xml	Thu Jul 15 13:09:00 2021 +0000
@@ -1,6 +1,6 @@
 <?xml version="1.0"?>
 <macros>
-    <token name="@TOOL_VERSION@">5.0.0</token>
+    <token name="@TOOL_VERSION@">5.2.1</token>
     <token name="@VERSION_SUFFIX@">0</token>
 
     <xml name="citations">
--- a/test-data/genome_results/full_table	Mon Mar 15 21:27:17 2021 +0000
+++ b/test-data/genome_results/full_table	Thu Jul 15 13:09:00 2021 +0000
@@ -1,5 +1,5 @@
-# BUSCO version is: 5.0.0 
-# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of species: 90, number of BUSCOs: 1013)
+# BUSCO version is: 5.2.1 
+# 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
 980at6656	Missing
--- a/test-data/genome_results/missing_buscos_list	Mon Mar 15 21:27:17 2021 +0000
+++ b/test-data/genome_results/missing_buscos_list	Thu Jul 15 13:09:00 2021 +0000
@@ -1,5 +1,5 @@
-# BUSCO version is: 5.0.0 
-# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of species: 90, number of BUSCOs: 1013)
+# BUSCO version is: 5.2.1 
+# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013)
 # Busco id
 100070at6656
 100136at6656
--- a/test-data/genome_results/short_summary	Mon Mar 15 21:27:17 2021 +0000
+++ b/test-data/genome_results/short_summary	Thu Jul 15 13:09:00 2021 +0000
@@ -1,6 +1,6 @@
-# BUSCO version is: 5.0.0 
-# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of species: 90, number of BUSCOs: 1013)
-# Summarized benchmarking in BUSCO notation for file /tmp/tmp7tgu744e/files/3/3/6/dataset_336adf79-955a-4ca8-aeda-96fc1fce9a4c.dat
+# BUSCO version is: 5.2.1 
+# 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
 # Gene predictor used: augustus
 
@@ -13,3 +13,12 @@
 	0	Fragmented BUSCOs (F)			   
 	1012	Missing BUSCOs (M)			   
 	1013	Total BUSCO groups searched		   
+
+Dependencies and versions:
+	hmmsearch: 3.1
+	makeblastdb: 2.12.0+
+	tblastn: 2.12.0+
+	augustus: 3.4.0
+	gff2gbSmallDNA.pl: None
+	new_species.pl: None
+	etraining: None
--- a/test-data/genome_results_metaeuk/full_table	Mon Mar 15 21:27:17 2021 +0000
+++ b/test-data/genome_results_metaeuk/full_table	Thu Jul 15 13:09:00 2021 +0000
@@ -1,5 +1,5 @@
-# BUSCO version is: 5.0.0 
-# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of species: 90, number of BUSCOs: 1013)
+# BUSCO version is: 5.2.1 
+# 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
 980at6656	Missing
--- a/test-data/genome_results_metaeuk/missing_buscos_list	Mon Mar 15 21:27:17 2021 +0000
+++ b/test-data/genome_results_metaeuk/missing_buscos_list	Thu Jul 15 13:09:00 2021 +0000
@@ -1,5 +1,5 @@
-# BUSCO version is: 5.0.0 
-# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of species: 90, number of BUSCOs: 1013)
+# BUSCO version is: 5.2.1 
+# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013)
 # Busco id
 100070at6656
 100136at6656
--- a/test-data/genome_results_metaeuk/short_summary	Mon Mar 15 21:27:17 2021 +0000
+++ b/test-data/genome_results_metaeuk/short_summary	Thu Jul 15 13:09:00 2021 +0000
@@ -1,6 +1,6 @@
-# BUSCO version is: 5.0.0 
-# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of species: 90, number of BUSCOs: 1013)
-# Summarized benchmarking in BUSCO notation for file /tmp/tmp7tgu744e/files/3/e/e/dataset_3ee78f14-2ccd-4666-af87-075e725e09bd.dat
+# BUSCO version is: 5.2.1 
+# 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
 # Gene predictor used: metaeuk
 
@@ -13,3 +13,7 @@
 	0	Fragmented BUSCOs (F)			   
 	1011	Missing BUSCOs (M)			   
 	1013	Total BUSCO groups searched		   
+
+Dependencies and versions:
+	hmmsearch: 3.1
+	metaeuk: 4.a0f584d
Binary file test-data/genome_results_metaeuk/summary.png has changed
--- a/test-data/proteome_results/full_table	Mon Mar 15 21:27:17 2021 +0000
+++ b/test-data/proteome_results/full_table	Thu Jul 15 13:09:00 2021 +0000
@@ -1,5 +1,5 @@
-# BUSCO version is: 5.0.0 
-# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of species: 90, number of BUSCOs: 1013)
+# BUSCO version is: 5.2.1 
+# 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
 980at6656	Missing
--- a/test-data/proteome_results/missing_buscos_list	Mon Mar 15 21:27:17 2021 +0000
+++ b/test-data/proteome_results/missing_buscos_list	Thu Jul 15 13:09:00 2021 +0000
@@ -1,5 +1,5 @@
-# BUSCO version is: 5.0.0 
-# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of species: 90, number of BUSCOs: 1013)
+# BUSCO version is: 5.2.1 
+# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013)
 # Busco id
 100070at6656
 100136at6656
--- a/test-data/proteome_results/short_summary	Mon Mar 15 21:27:17 2021 +0000
+++ b/test-data/proteome_results/short_summary	Thu Jul 15 13:09:00 2021 +0000
@@ -1,6 +1,6 @@
-# BUSCO version is: 5.0.0 
-# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of species: 90, number of BUSCOs: 1013)
-# Summarized benchmarking in BUSCO notation for file /tmp/tmp7tgu744e/files/8/e/0/dataset_8e0c0f40-2615-49a6-a2aa-9e5ad5f5a163.dat
+# BUSCO version is: 5.2.1 
+# 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
 # BUSCO was run in mode: proteins
 
 	***** Results: *****
@@ -12,3 +12,6 @@
 	0	Fragmented BUSCOs (F)			   
 	1012	Missing BUSCOs (M)			   
 	1013	Total BUSCO groups searched		   
+
+Dependencies and versions:
+	hmmsearch: 3.1
Binary file test-data/proteome_results/summary.png has changed
--- a/test-data/transcriptome_results/full_table	Mon Mar 15 21:27:17 2021 +0000
+++ b/test-data/transcriptome_results/full_table	Thu Jul 15 13:09:00 2021 +0000
@@ -1,5 +1,5 @@
-# BUSCO version is: 5.0.0 
-# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of species: 90, number of BUSCOs: 1013)
+# BUSCO version is: 5.2.1 
+# 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
 980at6656	Missing
--- a/test-data/transcriptome_results/missing_buscos_list	Mon Mar 15 21:27:17 2021 +0000
+++ b/test-data/transcriptome_results/missing_buscos_list	Thu Jul 15 13:09:00 2021 +0000
@@ -1,5 +1,5 @@
-# BUSCO version is: 5.0.0 
-# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of species: 90, number of BUSCOs: 1013)
+# BUSCO version is: 5.2.1 
+# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of genomes: 90, number of BUSCOs: 1013)
 # Busco id
 100070at6656
 100136at6656
--- a/test-data/transcriptome_results/short_summary	Mon Mar 15 21:27:17 2021 +0000
+++ b/test-data/transcriptome_results/short_summary	Thu Jul 15 13:09:00 2021 +0000
@@ -1,6 +1,6 @@
-# BUSCO version is: 5.0.0 
-# The lineage dataset is: arthropoda_odb10 (Creation date: 2020-09-10, number of species: 90, number of BUSCOs: 1013)
-# Summarized benchmarking in BUSCO notation for file /tmp/tmpn3gmbt1s/files/4/1/3/dataset_413f631e-7113-4502-9085-5f25549301e4.dat
+# BUSCO version is: 5.2.1 
+# 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
 
 	***** Results: *****
@@ -12,3 +12,7 @@
 	0	Fragmented BUSCOs (F)			   
 	1012	Missing BUSCOs (M)			   
 	1013	Total BUSCO groups searched		   
+
+Dependencies and versions:
+	hmmsearch: 3.1
+	metaeuk: 4.a0f584d
Binary file test-data/transcriptome_results/summary.png has changed