# HG changeset patch
# User iuc
# Date 1653327320 0
# Node ID 3c47f10ef48e6ef5da007d1e62d5073bb0a6817e
# Parent  3816d0abff56ccdb29d81a9edd621522280aa77b
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit feda4e2ea70c013fcddd1dbdeab73158fe9c86a4

diff -r 3816d0abff56 -r 3c47f10ef48e macros.xml
--- a/macros.xml	Wed May 11 06:36:44 2022 +0000
+++ b/macros.xml	Mon May 23 17:35:20 2022 +0000
@@ -10,7 +10,7 @@
     </xml>
 
     <token name="@TOOL_VERSION@">2.55</token>
-    <token name="@VERSION_SUFFIX@">3</token>
+    <token name="@VERSION_SUFFIX@">4</token>
     <token name="@PROFILE@">20.05</token>
 
     <xml name="citation">
@@ -474,6 +474,10 @@
         <data format="tabular" name="out_fststats_sum" label="${tool.name} on ${on_string} Summary of Fst statistics" from_work_dir="stacks_outputs/populations.fst_summary.tsv">
             <filter>fstats_conditional['fstats']=='yes' or kernel_smoothing['options_kernel']['kernel'] in ['--k', '--smooth-fstats']</filter>
         </data>
+        <collection type="list" name="out_fstats_popcompare" label="${tool.name} on ${on_string} Fst statistics between populations">
+            <discover_datasets pattern="populations\.fst_(?P&lt;designation&gt;[\w]+-[\w]+)\.tsv" format="tabular" directory="stacks_outputs"/>
+            <filter>fstats_conditional['fstats']=='yes' or kernel_smoothing['options_kernel']['kernel'] in ['--k', '--smooth-fstats']</filter>
+        </collection>
 
         <!-- fasta_loci populations.loci.fa
              fasta_samples populations.samples.fa
diff -r 3816d0abff56 -r 3c47f10ef48e test-data/populations/populations.fst_parent-progeny.tsv
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/populations/populations.fst_parent-progeny.tsv	Mon May 23 17:35:20 2022 +0000
@@ -0,0 +1,5 @@
+# Locus ID	Pop 1 ID	Pop 2 ID	Chr	BP	Column	Overall Pi	AMOVA Fst	Fisher's P	Odds Ratio	CI Low	CI High	LOD	Corrected AMOVA Fst	Smoothed AMOVA Fst	Smoothed AMOVA Fst P-value	Window SNP Count
+10	parent	progeny	Contig_3091	34	33	0.66667	0.00000	1.000000000	1.00000	0.01984	50.40044	0.00000	0.00000	0.00000	0.00000	0
+10	parent	progeny	Contig_3091	89	88	0.66667	0.00000	1.000000000	1.00000	0.01984	50.40044	0.00000	0.00000	0.00000	0.00000	0
+12	parent	progeny	Contig_3358	34	33	0.66667	0.00000	1.000000000	1.00000	0.01984	50.40044	0.00000	0.00000	0.00000	0.00000	0
+12	parent	progeny	Contig_3358	89	88	0.66667	0.00000	1.000000000	1.00000	0.01984	50.40044	0.00000	0.00000	0.00000	0.00000	0
diff -r 3816d0abff56 -r 3c47f10ef48e test-data/populations/populations.fst_summary_wgenotypes.tsv
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/populations/populations.fst_summary_wgenotypes.tsv	Mon May 23 17:35:20 2022 +0000
@@ -0,0 +1,2 @@
+	parent	progeny
+parent		0
diff -r 3816d0abff56 -r 3c47f10ef48e test-data/populations/populations.phistats_summary_wgenotypes.tsv
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/populations/populations.phistats_summary_wgenotypes.tsv	Mon May 23 17:35:20 2022 +0000
@@ -0,0 +1,11 @@
+# Phi_st Means
+	parent	progeny
+parent		-1
+
+# Fst' Means
+	parent	progeny
+parent		0
+
+# Dxy Means
+	parent	progeny
+parent		0.0107921