Jenkins update build 214.

usegalaxy-au · Oct 16, 2024 · a5fcc20 · a5fcc20
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diff --git a/automated_tool_installation_log.tsv b/automated_tool_installation_log.tsv
@@ -7952,3 +7952,9 @@ Install	1680	16/10/24 00:33:54	humann	False	Installed	iuc	c2803012bbb3	c2803012b
 Install	1680	16/10/24 00:34:51	humann_regroup_table	False	Installed	iuc	8237a0f225db	8237a0f225db				Metagenomic Analysis	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/install_build_1680/install_log.txt
 Install	1680	16/10/24 00:35:46	humann_rename_table	False	Installed	iuc	aabf8cfb8fef	aabf8cfb8fef				Metagenomic Analysis	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/install_build_1680/install_log.txt
 Install	1680	16/10/24 00:52:32	recentrifuge	False	Installed	iuc	591175c0f051	591175c0f051				Metagenomic Analysis	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/install_build_1680/install_log.txt
+Update	214	16/10/24 01:42:23	cutesv	False	Tests failed	iuc	cb441f258c37	cb441f258c37	Staging Testing	1/2		Variant Calling	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_214/install_log.txt
+Update	214	16/10/24 01:56:14	fastp	False	Installed	iuc	dbfc505896e9	dbfc505896e9		15/15		FASTA/FASTQ	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_214/install_log.txt
+Update	214	16/10/24 02:52:48	freebayes	False	Tests failed	devteam	3e954e7125bf	3e954e7125bf	Staging Testing	1/9		Variant Calling	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_214/install_log.txt
+Update	214	16/10/24 03:30:19	gfastats	False	Installed	bgruening	6ec1b853c8fd	6ec1b853c8fd		13/13		Assembly	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_214/install_log.txt
+Update	214	16/10/24 03:54:25	ggplot2_heatmap2	False	Installed	iuc	51c6ccaace7e	51c6ccaace7e		7/7		Graph/Display Data	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_214/install_log.txt
+Update	214	16/10/24 03:55:07	iqtree	False	Installed	iuc	f87ac61981f0	f87ac61981f0				Phylogenetics	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_214/install_log.txt
diff --git a/staging.gvl.org.au/annotation.yml b/staging.gvl.org.au/annotation.yml
@@ -2,32 +2,32 @@ tools:
 - name: abricate
   owner: iuc
   revisions:
+  - 6e9aea89e388
+  - 78c75f134c16
   - 3f3e247c053d
   - 4efdca267d51
-  - 6e9aea89e388
   - c2ef298da409
-  - 78c75f134c16
   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:
-  - 8dc7512c9dc9
   - 1dd7adc21b6d
+  - 8dc7512c9dc9
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: aegean_locuspocus
   owner: iuc
   revisions:
-  - 1fdc517743e6
   - c4ac24510b55
+  - 1fdc517743e6
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: aegean_parseval
@@ -41,56 +41,56 @@ tools:
   owner: iuc
   revisions:
   - 3e1f6f6d557e
-  - b5d8e5475247
-  - 1aae04680c4b
-  - fe3ca740a485
-  - 44018dd6b447
   - a79ee60b6926
   - f29602ae449e
+  - b5d8e5475247
+  - fe3ca740a485
   - cd2480f35935
   - 133f36c29579
+  - 44018dd6b447
   - 4f2967b27e67
+  - 1aae04680c4b
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: antismash
   owner: bgruening
   revisions:
-  - bc88856eddab
   - e78e25d3b4bd
+  - bc88856eddab
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: augustus_training
   owner: bgruening
   revisions:
-  - dc027fa56d55
-  - 6519ebe25019
   - f1e653756174
   - 7be22100e5e1
+  - 6519ebe25019
+  - dc027fa56d55
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: augustus
   owner: bgruening
   revisions:
+  - 09855551d713
+  - 28433faa6e42
   - ca6d970d931c
   - bd0e53f3a891
-  - 28433faa6e42
-  - 09855551d713
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: bakta
   owner: iuc
   revisions:
+  - 92eee5f31117
   - d77802fe76f7
   - 728dacaf08a9
-  - 92eee5f31117
   - da5f1924bb2e
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: barrnap
   owner: iuc
   revisions:
-  - 8fd427007e93
   - 7355bbf5e05f
+  - 8fd427007e93
   - fe48aa4ccd5e
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
@@ -103,8 +103,8 @@ tools:
 - name: chipseeker
   owner: rnateam
   revisions:
-  - 8bd92f2404dd
   - 1b9a9409831d
+  - 8bd92f2404dd
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: compleasm
@@ -116,17 +116,17 @@ tools:
 - name: cpat
   owner: bgruening
   revisions:
-  - 8e9e228c54c4
   - 7ccc6234b54e
+  - 8e9e228c54c4
   - 1ac12c0cc7a0
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: eggnog_mapper
   owner: galaxyp
   revisions:
+  - d9c3016f7283
   - 63662ae295d6
   - 9d1fbff733cf
-  - d9c3016f7283
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: exonerate
@@ -150,61 +150,61 @@ tools:
 - name: funannotate_annotate
   owner: iuc
   revisions:
+  - 9f2455341fac
   - 9c15ca7e764e
   - b6b5cd37f2a2
-  - 9f2455341fac
+  - 582fd74dc2a1
   - 14f588312c56
   - 3bbe70fef6df
-  - 582fd74dc2a1
   - 756376aeb1ae
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: funannotate_clean
   owner: iuc
   revisions:
-  - 1691af4a0d17
   - 989f7c061f35
-  - a230ea445788
+  - 30fb23d4c31c
   - 73428a792541
   - 8e1ace8f77c6
-  - 30fb23d4c31c
   - 0ffe5be70caf
+  - 1691af4a0d17
+  - a230ea445788
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: funannotate_compare
   owner: iuc
   revisions:
-  - 30f08d74024f
-  - 5a5ae61da69c
-  - 494f0bb4a993
   - e94187d661df
+  - 494f0bb4a993
+  - 5a5ae61da69c
   - 0418d28136de
   - 57c6718cbfcc
   - 563a19373357
+  - 30f08d74024f
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: funannotate_predict
   owner: iuc
   revisions:
-  - d6c7106b7b2e
   - f31125bb85ea
+  - d6c7106b7b2e
   - 7abc5f6dd595
   - f77d7b685bb3
+  - 2bba2ff070d9
   - 1bc5a03faf2e
   - 4b96ced19f75
-  - 2bba2ff070d9
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: funannotate_sort
   owner: iuc
   revisions:
-  - d77fdcca400e
-  - 54961e026fe4
-  - fed64e676186
-  - b3cf4684e9c7
-  - d3af38b9c7e1
   - 520e30695ec3
+  - d3af38b9c7e1
+  - b3cf4684e9c7
+  - d77fdcca400e
   - 52af33194019
+  - fed64e676186
+  - 54961e026fe4
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: get_orfs_or_cdss
@@ -216,9 +216,9 @@ tools:
 - name: gff_to_prot
   owner: iuc
   revisions:
+  - 2aea122fbd25
   - 79261884facd
   - 07d7991bf205
-  - 2aea122fbd25
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: goenrichment
@@ -230,9 +230,9 @@ tools:
 - name: goseq
   owner: iuc
   revisions:
-  - 43798b4caee0
   - ef2ad746b589
   - 8b3e3657034e
+  - 43798b4caee0
   - 602de62d995b
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
@@ -257,8 +257,8 @@ tools:
 - name: infernal
   owner: bgruening
   revisions:
-  - c9e29ac5d099
   - 477d829d3250
+  - c9e29ac5d099
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: interproscan
@@ -284,26 +284,26 @@ tools:
 - name: maker_map_ids
   owner: iuc
   revisions:
-  - e906fa778440
   - 326f9c294b09
+  - e906fa778440
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: maker
   owner: iuc
   revisions:
+  - d46d803ca6cc
   - 370c210d9541
   - 3c1a01127868
-  - d46d803ca6cc
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: mitos2
   owner: iuc
   revisions:
-  - 624606f7c996
+  - e95d52d295d7
   - 033755194fe9
-  - c8ac28e8ac44
   - b815ec682418
-  - e95d52d295d7
+  - c8ac28e8ac44
+  - 624606f7c996
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: mob_suite
@@ -345,11 +345,11 @@ tools:
 - name: prokka
   owner: crs4
   revisions:
-  - bf68eb663bc3
   - a17498c603ec
-  - 8a22554cdde2
   - eaee459f3d69
+  - bf68eb663bc3
   - d643e3b03500
+  - 8a22554cdde2
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: red
@@ -368,8 +368,8 @@ tools:
 - name: repeatmodeler
   owner: csbl
   revisions:
-  - 41bfbaf3c959
   - 8661b2607b7e
+  - 41bfbaf3c959
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: sanntis_marine
@@ -393,22 +393,22 @@ tools:
 - name: snpeff
   owner: iuc
   revisions:
-  - 68693743661e
+  - 6322be79bd8e
+  - 5c7b70713fb5
   - cfcf33df7fc0
-  - 8f92c2b26e6d
   - 268d162b9c49
-  - 6322be79bd8e
+  - 8f92c2b26e6d
   - 5b80f544c67f
+  - 68693743661e
   - 5a29ab10dba6
-  - 5c7b70713fb5
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: snpsift
   owner: iuc
   revisions:
-  - 09d6806c609e
-  - 5fab4f81391d
   - 2b3e65a4252f
+  - 5fab4f81391d
+  - 09d6806c609e
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: snptools
@@ -433,24 +433,24 @@ tools:
 - name: tbprofiler
   owner: iuc
   revisions:
-  - 037a11682176
-  - ba6f87115e13
   - d03af1c7002c
-  - 37213cf56392
+  - 809dfc93d593
+  - 037a11682176
   - 4839e590cb26
-  - e1a9d6fd258d
-  - 200c378d85f3
+  - 37213cf56392
+  - 51dd22484644
   - 45083d070fb8
+  - e1a9d6fd258d
+  - ba6f87115e13
   - ac8250086ac3
-  - 809dfc93d593
-  - 51dd22484644
+  - 200c378d85f3
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: transit_gumbel
   owner: iuc
   revisions:
-  - 8fc50fe60127
   - f50807720df1
+  - 8fc50fe60127
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: transit_hmm