# HG changeset patch
# User iuc
# Date 1503953420 14400
# Node ID 83a4bace3a2cd83c150e2173fb26f3e9c44d049a
# Parent  74aa3fb94330e989b45fd67a939f35de19f86fae
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/trinity commit bc4ea54f0deec4ddec8e6cf79fd547491e165686

diff -r 74aa3fb94330 -r 83a4bace3a2c analyze_diff_expr.xml
--- a/analyze_diff_expr.xml	Wed May 17 05:40:20 2017 -0400
+++ b/analyze_diff_expr.xml	Mon Aug 28 16:50:20 2017 -0400
@@ -6,6 +6,7 @@
     <expand macro="requirements">
         <requirement type="package" version="2.6.0">bioconductor-qvalue</requirement>
         <requirement type="package" version="1.26.0">bioconductor-goseq</requirement>
+        <requirement type="package" version="2.0.6">r-cluster</requirement>
     </expand>
     <command detect_errors="aggressive"><![CDATA[
     ## DE results input files must be in the working directory and have suffix .DE_results
diff -r 74aa3fb94330 -r 83a4bace3a2c test-data/count/kallisto/abundance.tsv
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/count/kallisto/abundance.tsv	Mon Aug 28 16:50:20 2017 -0400
@@ -0,0 +1,8 @@
+target_id	length	eff_length	est_counts	tpm
+TRINITY_DN1_c0_g1_i1	380	133.091	13	114025
+TRINITY_DN0_c0_g1_i1	229	31.75	7	257370
+TRINITY_DN2_c0_g1_i1	279	55.7143	1	20952.6
+TRINITY_DN2_c1_g1_i1	541	279.667	15	62611.6
+TRINITY_DN2_c2_g1_i1	240	42.75	4	109227
+TRINITY_DN2_c3_g1_i1	202	19	0	0
+TRINITY_DN3_c0_g1_i1	216	18.75	7	435814
diff -r 74aa3fb94330 -r 83a4bace3a2c test-data/count/kallisto/abundance.tsv.genes
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/count/kallisto/abundance.tsv.genes	Mon Aug 28 16:50:20 2017 -0400
@@ -0,0 +1,8 @@
+target_id	length	eff_length	est_counts	tpm
+TRINITY_DN3_c0_g1	216.00	18.75	7.00	435814.00
+TRINITY_DN2_c2_g1	240.00	42.75	4.00	109227.00
+TRINITY_DN2_c3_g1	202.00	19.00	0.00	0.00
+TRINITY_DN0_c0_g1	229.00	31.75	7.00	257370.00
+TRINITY_DN2_c0_g1	279.00	55.71	1.00	20952.60
+TRINITY_DN1_c0_g1	380.00	133.09	13.00	114025.00
+TRINITY_DN2_c1_g1	541.00	279.67	15.00	62611.60
diff -r 74aa3fb94330 -r 83a4bace3a2c test-data/count/kallisto/abundance_B.tsv
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/count/kallisto/abundance_B.tsv	Mon Aug 28 16:50:20 2017 -0400
@@ -0,0 +1,8 @@
+target_id	length	eff_length	est_counts	tpm
+TRINITY_DN1_c0_g1_i1	229	31.75	7	257370
+TRINITY_DN0_c0_g1_i1	380	133.091	13	114025
+TRINITY_DN2_c0_g1_i1	279	55.7143	1	20952.6
+TRINITY_DN2_c2_g1_i1	541	279.667	15	62611.6
+TRINITY_DN2_c1_g1_i1	240	42.75	4	109227
+TRINITY_DN2_c3_g1_i1	202	19	0	0
+TRINITY_DN3_c0_g1_i1	216	18.75	7	435814
diff -r 74aa3fb94330 -r 83a4bace3a2c test-data/count/kallisto/abundance_B.tsv.genes
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/count/kallisto/abundance_B.tsv.genes	Mon Aug 28 16:50:20 2017 -0400
@@ -0,0 +1,8 @@
+target_id	length	eff_length	est_counts	tpm
+TRINITY_DN3_c0_g1	216.00	18.75	7.00	435814.00
+TRINITY_DN2_c1_g1	240.00	42.75	4.00	109227.00
+TRINITY_DN2_c3_g1	202.00	19.00	0.00	0.00
+TRINITY_DN0_c0_g1	380.00	133.09	13.00	114025.00
+TRINITY_DN2_c0_g1	279.00	55.71	1.00	20952.60
+TRINITY_DN1_c0_g1	229.00	31.75	7.00	257370.00
+TRINITY_DN2_c2_g1	541.00	279.67	15.00	62611.60