From 0d2b1b7f07cf050b76bb905540f382be7e1cd68f Mon Sep 17 00:00:00 2001
From: Saim Momin <64724322+SaimMomin12@users.noreply.github.com>
Date: Fri, 2 Aug 2024 17:24:46 +0200
Subject: [PATCH] Updated tool to latest version and test-data (#6203)

---
 tools/genomescope/genomescope.xml                  | 6 +++---
 tools/genomescope/test-data/genomescope-out1-1.tab | 2 +-
 tools/genomescope/test-data/genomescope-out1-1.txt | 2 +-
 tools/genomescope/test-data/genomescope-out1-2.txt | 8 ++++----
 tools/genomescope/test-data/genomescope-out1-3.txt | 8 ++++----
 5 files changed, 13 insertions(+), 13 deletions(-)

diff --git a/tools/genomescope/genomescope.xml b/tools/genomescope/genomescope.xml
index 62e1289e7d6..c32cc21d4c4 100644
--- a/tools/genomescope/genomescope.xml
+++ b/tools/genomescope/genomescope.xml
@@ -1,8 +1,8 @@
 <tool id="genomescope" name="GenomeScope" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.01">
     <description>reference-free genome profiling</description>
     <macros>
-        <token name="@TOOL_VERSION@">2.0</token>
-        <token name="@VERSION_SUFFIX@">2</token>
+        <token name="@TOOL_VERSION@">2.0.1</token>
+        <token name="@VERSION_SUFFIX@">0</token>
     </macros>
     <requirements>
         <requirement type="package" version="@TOOL_VERSION@">genomescope2</requirement>
@@ -204,7 +204,7 @@
             <output name="summary" ftype="txt" lines_diff="2">
                 <assert_contents>
                     <has_line line="initial heterozygosities = 0.04,0.01"/>
-                    <has_text text="Homozygous (aaa)              6.03606%          100%"/>
+                    <has_text text="Homozygous (aaa)              7.70599%          100%"/>
                 </assert_contents>
             </output>
         </test>
diff --git a/tools/genomescope/test-data/genomescope-out1-1.tab b/tools/genomescope/test-data/genomescope-out1-1.tab
index 712bc45212c..5ca0a9e481d 100644
--- a/tools/genomescope/test-data/genomescope-out1-1.tab
+++ b/tools/genomescope/test-data/genomescope-out1-1.tab
@@ -1 +1 @@
-0.0286284442637493	0.0103961720120016	22.1589612104347	0.458078023574561	151946613.878237	0
+0.0286284442637044	0.0103961720119177	22.158961210429	0.458078023602553	154970224.342805	0
diff --git a/tools/genomescope/test-data/genomescope-out1-1.txt b/tools/genomescope/test-data/genomescope-out1-1.txt
index 2bb8b8ea6d5..326a615424f 100644
--- a/tools/genomescope/test-data/genomescope-out1-1.txt
+++ b/tools/genomescope/test-data/genomescope-out1-1.txt
@@ -6,7 +6,7 @@ Parameters:
          Estimate Std. Error t value Pr(>|t|)    
 d       2.863e-02  4.312e-04   66.39   <2e-16 ***
 r1      1.040e-02  3.291e-05  315.91   <2e-16 ***
-kmercov 2.216e+01  4.424e-03 5008.85   <2e-16 ***
+kmercov 2.216e+01  4.424e-03 5008.84   <2e-16 ***
 bias    4.581e-01  2.786e-03  164.42   <2e-16 ***
 length  1.065e+08  9.361e+04 1137.81   <2e-16 ***
 ---
diff --git a/tools/genomescope/test-data/genomescope-out1-2.txt b/tools/genomescope/test-data/genomescope-out1-2.txt
index be6b24b0bb1..00b35348402 100644
--- a/tools/genomescope/test-data/genomescope-out1-2.txt
+++ b/tools/genomescope/test-data/genomescope-out1-2.txt
@@ -1,5 +1,5 @@
 GenomeScope version 2.0
-input file = /tmp/tmpiqlcd57_/files/3/b/b/dataset_3bb1f7de-024a-4b3c-aa68-e735f06791c1.dat
+input file = /tmp/tmpn_n7x4vk/files/7/f/0/dataset_7f0c0112-b229-48e2-bc24-01039c9665e6.dat
 output directory = .
 p = 2
 k = 21
@@ -8,8 +8,8 @@ TESTING set to TRUE
 property                      min               max               
 Homozygous (aa)               98.9538%          98.967%           
 Heterozygous (ab)             1.03304%          1.0462%           
-Genome Haploid Length         151,885,967 bp    152,007,309 bp    
-Genome Repeat Length          48,469,025 bp     48,507,747 bp     
+Genome Haploid Length         154,908,370 bp    155,032,128 bp    
+Genome Repeat Length          51,491,429 bp     51,532,566 bp     
 Genome Unique Length          103,416,942 bp    103,499,562 bp    
 Model Fit                     69.6762%          98.569%           
-Read Error Rate               0.349793%         0.349793%         
+Read Error Rate               0.34322%          0.34322%          
diff --git a/tools/genomescope/test-data/genomescope-out1-3.txt b/tools/genomescope/test-data/genomescope-out1-3.txt
index 5517b498414..9cc9f2c5cb2 100644
--- a/tools/genomescope/test-data/genomescope-out1-3.txt
+++ b/tools/genomescope/test-data/genomescope-out1-3.txt
@@ -1,6 +1,6 @@
 starting
-round 0 trimming to 8 trying 2p peak model... converged. score:  759966810268782
-round 1 trimming to 13 trying 2p peak model... converged. score:  758881495868533
-round 2 trimming to 18 trying 2p peak model... converged. score:  752379509919454
-round 3 trimming to 23 trying 2p peak model... converged. score:  747542116457350
+round 0 trimming to 8 trying 2p peak model... converged. score:  759966810472785
+round 1 trimming to 13 trying 2p peak model... converged. score:  758881496099282
+round 2 trimming to 18 trying 2p peak model... converged. score:  752379509616676
+round 3 trimming to 23 trying 2p peak model... converged. score:  747542116460650
 done