Mercurial > repos > iuc > seqkit_head

changeset 2:00b80b25e4e8 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/seqkit commit 76c1a289f15cc9a9a7d9a49dc132af62cc1d5af2
author iuc
date Fri, 26 Sep 2025 16:47:37 +0000
parents d8bdecb62b85
children 6ee2862f989b
files macros.xml test-data/fx2tab_output4.tabular test-data/grep_output1.fasta.gz test-data/grep_output2.fasta.gz test-data/grep_output3.fastq.gz test-data/grep_output4.fasta.gz test-data/grep_pattern.fasta test-data/hairpin.fa.gz test-data/reads_1.fq.gz test-data/reads_2.fq.gz test-data/stats_output1.tabular test-data/stats_output2.tabular
diffstat 12 files changed, 11 insertions(+), 8 deletions(-) [+]
line wrap: on
line diff
--- a/macros.xml	Mon Mar 17 09:50:05 2025 +0000
+++ b/macros.xml	Fri Sep 26 16:47:37 2025 +0000
@@ -1,7 +1,8 @@
 <macros>
-    <token name="@TOOL_VERSION@">2.10.0</token>
+    <token name="@TOOL_VERSION@">2.10.1</token>
     <token name="@VERSION_SUFFIX@">0</token>
-    <token name="@PROFILE@">20.09</token>
+    <token name="@PROFILE@">24.0</token>
+    <token name="@FASTQ_TYPES@">fasta,fasta.gz,fastqsanger,fastqsanger.gz</token>
     <xml name="bio_tools">
         <xrefs>
             <xref type="bio.tools">seqkit</xref>
--- a/test-data/fx2tab_output4.tabular	Mon Mar 17 09:50:05 2025 +0000
+++ b/test-data/fx2tab_output4.tabular	Fri Sep 26 16:47:37 2025 +0000
@@ -1,4 +1,4 @@
-#id	length	GC	GC-Skew	alphabet	avg.qual	seq.hash
-ENA|AB011145|AB011145.1	4796	38.47	11.65	ACGT	0.00	c19cf05cadbdbc26e22efc2201acfcec
-ENA|M10051|M10051.1	4723	55.24	0.50	ACGT	0.00	4f6bbf79e427ef90b6f31de5023ad241
-ENA|BC112106|BC112106.1	1213	58.78	-15.01	ACGT	0.00	3b099f7df389373bb7e3269efc819599
+#id	length	GC	GC-Skew	A	AT	alphabet	avg.qual	seq.hash
+ENA|AB011145|AB011145.1	4796	38.47	11.65	1545	61.53	ACGT	0.00	c19cf05cadbdbc26e22efc2201acfcec
+ENA|M10051|M10051.1	4723	55.24	0.50	1068	44.76	ACGT	0.00	4f6bbf79e427ef90b6f31de5023ad241
+ENA|BC112106|BC112106.1	1213	58.78	-15.01	233	41.22	ACGT	0.00	3b099f7df389373bb7e3269efc819599
Binary file test-data/grep_output1.fasta.gz has changed
Binary file test-data/grep_output2.fasta.gz has changed
Binary file test-data/grep_output3.fastq.gz has changed
Binary file test-data/grep_output4.fasta.gz has changed
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/grep_pattern.fasta	Fri Sep 26 16:47:37 2025 +0000
@@ -0,0 +1,2 @@
+ENA|AB011145|AB011145.1
+ENA|BC112106|BC112106.1
Binary file test-data/hairpin.fa.gz has changed
Binary file test-data/reads_1.fq.gz has changed
Binary file test-data/reads_2.fq.gz has changed
--- a/test-data/stats_output1.tabular	Mon Mar 17 09:50:05 2025 +0000
+++ b/test-data/stats_output1.tabular	Fri Sep 26 16:47:37 2025 +0000
@@ -1,2 +1,2 @@
 file	format	type	num_seqs	sum_len	min_len	avg_len	max_len	Q1	Q2	Q3	sum_gap	N50	N50_num	Q20(%)	Q30(%)	AvgQual	GC(%)	sum_n
-input1_fastq_gz	FASTQ	DNA	5	505	101	101.0	101	101.0	101.0	101.0	0	101	1	98.02	89.31	25.93	35.45	0
+input1_fastq_gz	FASTQ	DNA	5	505	101	101.0	101	101	101	101	0	101	1	98	89	25.93	35.45	0
--- a/test-data/stats_output2.tabular	Mon Mar 17 09:50:05 2025 +0000
+++ b/test-data/stats_output2.tabular	Fri Sep 26 16:47:37 2025 +0000
@@ -1,2 +1,2 @@
 file	format	type	num_seqs	sum_len	min_len	avg_len	max_len	Q1	Q2	Q3	sum_gap	N50	N50_num	Q20(%)	Q30(%)	AvgQual	GC(%)	sum_n
-input1_fasta_gz	FASTA	DNA	3	10732	1213	3577.3	4796	2968.0	4723.0	4759.5	0	4723	2	0.00	0.00	0.00	48.15	0
+input1_fasta_gz	FASTA	DNA	3	10732	1213	3577.3	4796	2968	4723	4760	0	4723	2	0	0	0.00	48.15	0