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AustralianBioCommons · Feb 7, 2024 · 0bdd5f5 · 0bdd5f5
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diff --git a/data/data.yaml b/data/data.yaml
@@ -4101,8 +4101,8 @@
     \ outputs the probabilities p (0 \u2264 p \u2264 1), which measure the likelihood\
     \ of protein coding."
   galaxy:
-  - title: CPAT 3.0.4+galaxy0
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fcpat%2Fcpat%2F3.0.4%2Bgalaxy0
+  - title: CPAT 3.0.5+galaxy0
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fcpat%2Fcpat%2F3.0.5%2Bgalaxy0
   homepage: http://lilab.research.bcm.edu/cpat/
   id: cpat
   license: GPL-3.0
@@ -4436,8 +4436,8 @@
   description: Find and remove adapter sequences, primers, poly-A tails and other
     types of unwanted sequence from your high-throughput sequencing reads.
   galaxy:
-  - title: Cutadapt 4.4+galaxy0
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Flparsons%2Fcutadapt%2Fcutadapt%2F4.4%2Bgalaxy0
+  - title: Cutadapt 4.6+galaxy1
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Flparsons%2Fcutadapt%2Fcutadapt%2F4.6%2Bgalaxy1
   homepage: https://pypi.org/project/cutadapt/
   id: cutadapt
   license: MIT
@@ -10031,8 +10031,8 @@
   - 0.16.1-gcccore-10.3.0
   description: 'Hifiasm: a haplotype-resolved assembler for accurate Hifi reads'
   galaxy:
-  - title: Hifiasm 0.19.8+galaxy0
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fhifiasm%2Fhifiasm%2F0.19.8%2Bgalaxy0
+  - title: Hifiasm 0.19.8+galaxy1
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fhifiasm%2Fhifiasm%2F0.19.8%2Bgalaxy1
   homepage: https://github.com/chhylp123/hifiasm
   id: hifiasm
   license: MIT
@@ -11538,8 +11538,8 @@
   description: Automated identification of insertion sequence elements in prokaryotic
     genomes.
   galaxy:
-  - title: ISEScan 1.7.2.3+galaxy0
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fisescan%2Fisescan%2F1.7.2.3%2Bgalaxy0
+  - title: ISEScan 1.7.2.3+galaxy1
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fisescan%2Fisescan%2F1.7.2.3%2Bgalaxy1
   homepage: https://github.com/xiezhq/ISEScan
   id: isescan
   license: ''
@@ -11876,8 +11876,8 @@
   - 2.3.0-gcc-11.3.0                (D)
   description: A command-line algorithm for counting k-mers in DNA sequence.
   galaxy:
-  - title: jellyfish 2.3.0+galaxy0
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fjellyfish%2Fjellyfish%2F2.3.0%2Bgalaxy0
+  - title: jellyfish 2.3.0+galaxy1
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fjellyfish%2Fjellyfish%2F2.3.0%2Bgalaxy1
   homepage: http://www.genome.umd.edu/jellyfish.html
   id: jellyfish
   license: GPL-3.0
@@ -14980,8 +14980,8 @@
   bunya: ''
   description: De novo metazoan mitochondrial genome annotation.
   galaxy:
-  - title: MITOS2 2.1.3+galaxy0
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fmitos2%2Fmitos2%2F2.1.3%2Bgalaxy0
+  - title: MITOS2 2.1.6+galaxy0
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fmitos2%2Fmitos2%2F2.1.6%2Bgalaxy0
   homepage: https://mitos.bioinf.uni-leipzig.de/index.py
   id: mitos2
   license: ''
@@ -21376,6 +21376,8 @@
     and manipulation, sorting, querying, statistics, variant calling, and effect analysis
     amongst other methods.
   galaxy:
+  - title: Samtools split 1.15.1+galaxy2
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fdevteam%2Fsamtools_split%2Fsamtools_split%2F1.15.1%2Bgalaxy2
   - title: Samtools fastx 1.15.1+galaxy2
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fsamtools_fastx%2Fsamtools_fastx%2F1.15.1%2Bgalaxy2
   - title: Samtools calmd 2.0.4
@@ -21408,8 +21410,6 @@
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fdevteam%2Fsamtools_rmdup%2Fsamtools_rmdup%2F2.0.1
   - title: Samtools sort 2.0.5
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fdevteam%2Fsamtools_sort%2Fsamtools_sort%2F2.0.5
-  - title: Samtools split 1.15.1+galaxy0
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fdevteam%2Fsamtools_split%2Fsamtools_split%2F1.15.1%2Bgalaxy0
   - title: Samtools view 1.15.1+galaxy2
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fsamtools_view%2Fsamtools_view%2F1.15.1%2Bgalaxy2
   homepage: http://www.htslib.org/

diff --git a/docs/2_1_workflows.html b/docs/2_1_workflows.html
diff --git a/docs/2_tools.html b/docs/2_tools.html