Jenkins update build 229.

usegalaxy-au · Jan 22, 2025 · 8deb149 · 8deb149
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diff --git a/automated_tool_installation_log.tsv b/automated_tool_installation_log.tsv
@@ -8277,3 +8277,6 @@ Update	228	15/01/25 03:08:54	scanpy_filter	False	Installed	iuc	5b3c1679d29b	5b3c
 Install	1723	16/01/25 05:51:57	featurecounts	False	Installed	iuc	5dbff3a5845a	5dbff3a5845a				RNA-seq	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/install_build_1723/install_log.txt
 Install	1723	16/01/25 05:53:31	infernal	False	Installed	bgruening	3711f654044e	3711f654044e				Annotation	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/install_build_1723/install_log.txt
 Install	1723	16/01/25 05:57:13	quast	False	Installed	iuc	a3b35edea53a	a3b35edea53a				Assembly	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/install_build_1723/install_log.txt
+Update	229	22/01/25 01:22:18	compleasm	False	Tests failed	iuc	7109a27a11db	7109a27a11db	Staging Testing	0/1		Annotation	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_229/install_log.txt
+Update	229	22/01/25 01:28:01	krakentools_alpha_diversity	False	Tests failed	iuc	78b69342c280	78b69342c280	Staging Testing	3/5		Metagenomic Analysis	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_229/install_log.txt
+Update	229	22/01/25 01:32:08	snippy	False	Installed	iuc	08d22d220254	08d22d220254				Variant Calling	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_229/install_log.txt
diff --git a/staging.gvl.org.au/annotation.yml b/staging.gvl.org.au/annotation.yml
@@ -2,25 +2,25 @@ tools:
 - name: abricate
   owner: iuc
   revisions:
+  - 3f3e247c053d
   - 78c75f134c16
   - 4efdca267d51
-  - 3f3e247c053d
   - 6e9aea89e388
   - c2ef298da409
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: aegean_canongff3
   owner: iuc
   revisions:
-  - 3f438bf5475d
   - c45c9dd066e2
+  - 3f438bf5475d
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: aegean_gaeval
   owner: iuc
   revisions:
-  - 1dd7adc21b6d
   - 8dc7512c9dc9
+  - 1dd7adc21b6d
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: aegean_locuspocus
@@ -40,16 +40,16 @@ tools:
 - name: annotatemyids
   owner: iuc
   revisions:
-  - a79ee60b6926
   - 44018dd6b447
-  - 4f2967b27e67
+  - cd2480f35935
+  - b5d8e5475247
+  - a79ee60b6926
   - fe3ca740a485
-  - 3e1f6f6d557e
-  - f29602ae449e
   - 1aae04680c4b
+  - f29602ae449e
+  - 4f2967b27e67
   - 133f36c29579
-  - cd2480f35935
-  - b5d8e5475247
+  - 3e1f6f6d557e
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: antismash
@@ -62,38 +62,38 @@ tools:
 - name: augustus_training
   owner: bgruening
   revisions:
-  - 6519ebe25019
   - aada0deea587
-  - dc027fa56d55
-  - f1e653756174
   - 7be22100e5e1
+  - f1e653756174
+  - 6519ebe25019
+  - dc027fa56d55
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: augustus
   owner: bgruening
   revisions:
   - 0fc0f9cf035a
-  - bd0e53f3a891
   - 09855551d713
-  - ca6d970d931c
   - 28433faa6e42
+  - ca6d970d931c
+  - bd0e53f3a891
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: bakta
   owner: iuc
   revisions:
   - 92eee5f31117
-  - d77802fe76f7
-  - da5f1924bb2e
   - 728dacaf08a9
+  - da5f1924bb2e
+  - d77802fe76f7
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: barrnap
   owner: iuc
   revisions:
+  - fe48aa4ccd5e
   - 8fd427007e93
   - 7355bbf5e05f
-  - fe48aa4ccd5e
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: braker3
@@ -105,8 +105,8 @@ tools:
 - name: chipseeker
   owner: rnateam
   revisions:
-  - 1b9a9409831d
   - 8bd92f2404dd
+  - 1b9a9409831d
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: compleasm
@@ -118,17 +118,17 @@ tools:
 - name: cpat
   owner: bgruening
   revisions:
+  - 7ccc6234b54e
   - 1ac12c0cc7a0
   - 8e9e228c54c4
-  - 7ccc6234b54e
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: eggnog_mapper
   owner: galaxyp
   revisions:
   - 9d1fbff733cf
-  - d9c3016f7283
   - 63662ae295d6
+  - d9c3016f7283
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: exonerate
@@ -158,22 +158,22 @@ tools:
 - name: funannotate_annotate
   owner: iuc
   revisions:
-  - 14f588312c56
+  - 9f2455341fac
   - 582fd74dc2a1
   - b6b5cd37f2a2
-  - 9f2455341fac
   - 756376aeb1ae
   - 3bbe70fef6df
   - 9c15ca7e764e
+  - 14f588312c56
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: funannotate_clean
   owner: iuc
   revisions:
-  - 1691af4a0d17
   - 73428a792541
   - 30fb23d4c31c
   - 0ffe5be70caf
+  - 1691af4a0d17
   - 8e1ace8f77c6
   - 989f7c061f35
   - a230ea445788
@@ -182,37 +182,37 @@ tools:
 - name: funannotate_compare
   owner: iuc
   revisions:
-  - 57c6718cbfcc
-  - 5a5ae61da69c
-  - 0418d28136de
   - 563a19373357
-  - e94187d661df
   - 494f0bb4a993
+  - 5a5ae61da69c
   - 30f08d74024f
+  - 57c6718cbfcc
+  - 0418d28136de
+  - e94187d661df
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: funannotate_predict
   owner: iuc
   revisions:
-  - 1bc5a03faf2e
+  - f77d7b685bb3
   - 4b96ced19f75
+  - 7abc5f6dd595
+  - 1bc5a03faf2e
   - f31125bb85ea
   - d6c7106b7b2e
   - 2bba2ff070d9
-  - 7abc5f6dd595
-  - f77d7b685bb3
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: funannotate_sort
   owner: iuc
   revisions:
-  - fed64e676186
-  - d77fdcca400e
-  - b3cf4684e9c7
   - 520e30695ec3
-  - 52af33194019
   - 54961e026fe4
+  - d77fdcca400e
   - d3af38b9c7e1
+  - 52af33194019
+  - b3cf4684e9c7
+  - fed64e676186
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: get_orfs_or_cdss
@@ -224,9 +224,9 @@ tools:
 - name: gff_to_prot
   owner: iuc
   revisions:
-  - 07d7991bf205
-  - 2aea122fbd25
   - 79261884facd
+  - 2aea122fbd25
+  - 07d7991bf205
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: goenrichment
@@ -238,10 +238,10 @@ tools:
 - name: goseq
   owner: iuc
   revisions:
+  - ef2ad746b589
   - 8b3e3657034e
-  - 43798b4caee0
   - 602de62d995b
-  - ef2ad746b589
+  - 43798b4caee0
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: goslimmer
@@ -300,18 +300,18 @@ tools:
 - name: maker
   owner: iuc
   revisions:
-  - 3c1a01127868
   - 370c210d9541
   - d46d803ca6cc
+  - 3c1a01127868
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: mitos2
   owner: iuc
   revisions:
-  - c8ac28e8ac44
   - e95d52d295d7
   - b815ec682418
   - 033755194fe9
+  - c8ac28e8ac44
   - 624606f7c996
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
@@ -354,11 +354,11 @@ tools:
 - name: prokka
   owner: crs4
   revisions:
-  - bf68eb663bc3
+  - 8a22554cdde2
   - a17498c603ec
+  - bf68eb663bc3
   - eaee459f3d69
   - d643e3b03500
-  - 8a22554cdde2
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: red
@@ -370,15 +370,15 @@ tools:
 - name: repeat_masker
   owner: bgruening
   revisions:
-  - ba6d2c32f797
   - 3f987772e283
+  - ba6d2c32f797
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: repeatmodeler
   owner: csbl
   revisions:
-  - 41bfbaf3c959
   - 8661b2607b7e
+  - 41bfbaf3c959
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: sanntis_marine
@@ -402,22 +402,22 @@ tools:
 - name: snpeff
   owner: iuc
   revisions:
-  - 8f92c2b26e6d
-  - 5b80f544c67f
+  - 6322be79bd8e
   - 5a29ab10dba6
+  - cfcf33df7fc0
+  - 5c7b70713fb5
   - c7275bd8b4d6
+  - 5b80f544c67f
   - 68693743661e
-  - 5c7b70713fb5
   - 268d162b9c49
-  - 6322be79bd8e
-  - cfcf33df7fc0
+  - 8f92c2b26e6d
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: snpsift
   owner: iuc
   revisions:
-  - 09d6806c609e
   - 5fab4f81391d
+  - 09d6806c609e
   - 2b3e65a4252f
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
@@ -443,18 +443,18 @@ tools:
 - name: tbprofiler
   owner: iuc
   revisions:
-  - e1a9d6fd258d
+  - 200c378d85f3
   - d03af1c7002c
   - 45083d070fb8
-  - 809dfc93d593
-  - 37213cf56392
-  - 4839e590cb26
+  - 8cb134b8c1a5
   - ac8250086ac3
-  - ba6f87115e13
-  - 51dd22484644
+  - 4839e590cb26
+  - 37213cf56392
   - 037a11682176
-  - 200c378d85f3
-  - 8cb134b8c1a5
+  - 809dfc93d593
+  - 51dd22484644
+  - ba6f87115e13
+  - e1a9d6fd258d
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: transit_gumbel