Jenkins update build 210.

usegalaxy-au · Sep 18, 2024 · daf125e · daf125e
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diff --git a/automated_tool_installation_log.tsv b/automated_tool_installation_log.tsv
@@ -7779,3 +7779,23 @@ Install	1616	17/09/24 12:17:54	bbtools_bbmap	True	Tests failed	iuc	456d8ebb6a28
 Install	1616	17/09/24 12:23:56	bbtools_bbmerge	True	Installed	iuc	cab19c0452c4	latest		3/3		BB Tools	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/install_build_1616/install_log.txt
 Install	1616	18/09/24 03:36:38	bbtools_callvariants	True	Tests failed	iuc	7e041c120b96	latest	Staging Testing	0/3		BB Tools	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/install_build_1616/install_log.txt
 Install	1616	18/09/24 10:41:37	bbtools_tadpole	True	Installed	iuc	0ddf147d1897	latest		3/3		BB Tools	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/install_build_1616/install_log.txt
+Update	210	18/09/24 11:50:35	anndata_export	False	Installed	iuc	cfaf5a405371	cfaf5a405371		1/1		Single-cell	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 12:10:03	anndata_import	False	Installed	iuc	d330b3082107	d330b3082107		8/8		Single-cell	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 12:28:05	anndata_inspect	False	Installed	iuc	0bf7fddf90c7	0bf7fddf90c7		16/16		Single-cell	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 12:47:22	anndata_manipulate	False	Installed	iuc	7e8c677a7b71	7e8c677a7b71		14/14		Single-cell	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 12:50:48	gtdbtk_classify_wf	False	Installed	iuc	b907a3c0434f	b907a3c0434f		1/1		Metagenomic Analysis	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 13:05:52	modify_loom	False	Installed	iuc	0f1aaff9b22d	0f1aaff9b22d		6/6		Single-cell	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 13:14:19	recetox_aplcms_align_features	False	Installed	recetox	c53a97599181	c53a97599181		1/1		Metabolomics	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 13:17:15	recetox_aplcms_compute_clusters	False	Installed	recetox	18ec7635bac6	18ec7635bac6		1/1		Metabolomics	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 13:20:00	recetox_aplcms_compute_template	False	Installed	recetox	134be5abb208	134be5abb208		1/1		Metabolomics	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 13:23:05	recetox_aplcms_correct_time	False	Installed	recetox	51332c2520c7	51332c2520c7		1/1		Metabolomics	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 13:40:15	recetox_aplcms_generate_feature_table	False	Installed	recetox	b341cfd4baf8	b341cfd4baf8		2/2		Metabolomics	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 13:43:07	recetox_aplcms_merge_known_table	False	Installed	recetox	cf061712a184	cf061712a184		1/1		Metabolomics	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 13:45:54	recetox_aplcms_recover_weaker_signals	False	Installed	recetox	24278c6b6d1c	24278c6b6d1c		1/1		Metabolomics	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 13:50:41	recetox_aplcms_remove_noise	False	Installed	recetox	ea0758b41473	ea0758b41473		2/2		Metabolomics	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 14:21:15	scanpy_cluster_reduce_dimension	False	Installed	iuc	178242b82297	178242b82297		11/11		Single-cell	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 14:49:33	scanpy_filter	False	Installed	iuc	713a0c65b1fe	713a0c65b1fe		12/12		Single-cell	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 15:12:31	scanpy_inspect	False	Installed	iuc	18262103fa61	18262103fa61		14/14		Single-cell	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 15:31:12	scanpy_normalize	False	Installed	iuc	5dada6f76047	5dada6f76047		6/6		Single-cell	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 16:13:12	scanpy_plot	False	Installed	iuc	2dfb2227a16c	2dfb2227a16c		38/38		Single-cell	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
+Update	210	18/09/24 16:37:11	scanpy_remove_confounders	False	Installed	iuc	b70219da4a96	b70219da4a96		6/6		Single-cell	toolshed.g2.bx.psu.edu	/var/lib/jenkins/galaxy_tool_automation/update_build_210/install_log.txt
diff --git a/staging.gvl.org.au/annotation.yml b/staging.gvl.org.au/annotation.yml
@@ -2,18 +2,18 @@ tools:
 - name: abricate
   owner: iuc
   revisions:
-  - 4efdca267d51
-  - 6e9aea89e388
+  - 3f3e247c053d
   - 78c75f134c16
   - c2ef298da409
-  - 3f3e247c053d
+  - 6e9aea89e388
+  - 4efdca267d51
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: aegean_canongff3
   owner: iuc
   revisions:
-  - c45c9dd066e2
   - 3f438bf5475d
+  - c45c9dd066e2
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: aegean_gaeval
@@ -26,8 +26,8 @@ tools:
 - 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
@@ -40,56 +40,56 @@ tools:
 - name: annotatemyids
   owner: iuc
   revisions:
-  - f29602ae449e
-  - 133f36c29579
-  - 1aae04680c4b
+  - fe3ca740a485
   - cd2480f35935
-  - 44018dd6b447
+  - 3e1f6f6d557e
+  - 1aae04680c4b
   - b5d8e5475247
-  - a79ee60b6926
+  - 44018dd6b447
   - 4f2967b27e67
-  - 3e1f6f6d557e
-  - fe3ca740a485
+  - a79ee60b6926
+  - f29602ae449e
+  - 133f36c29579
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: antismash
   owner: bgruening
   revisions:
-  - e78e25d3b4bd
   - bc88856eddab
+  - e78e25d3b4bd
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: augustus_training
   owner: bgruening
   revisions:
-  - dc027fa56d55
   - 7be22100e5e1
   - 6519ebe25019
+  - dc027fa56d55
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: augustus
   owner: bgruening
   revisions:
-  - 09855551d713
   - 28433faa6e42
+  - 09855551d713
   - ca6d970d931c
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: bakta
   owner: iuc
   revisions:
-  - d77802fe76f7
-  - 92eee5f31117
-  - 728dacaf08a9
   - da5f1924bb2e
+  - 728dacaf08a9
+  - 92eee5f31117
+  - d77802fe76f7
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: barrnap
   owner: iuc
   revisions:
   - 8fd427007e93
-  - fe48aa4ccd5e
   - 7355bbf5e05f
+  - fe48aa4ccd5e
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: braker3
@@ -114,17 +114,17 @@ tools:
 - name: cpat
   owner: bgruening
   revisions:
-  - 1ac12c0cc7a0
-  - 7ccc6234b54e
   - 8e9e228c54c4
+  - 7ccc6234b54e
+  - 1ac12c0cc7a0
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: eggnog_mapper
   owner: galaxyp
   revisions:
+  - 63662ae295d6
   - 9d1fbff733cf
   - d9c3016f7283
-  - 63662ae295d6
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: exonerate
@@ -148,61 +148,61 @@ tools:
 - name: funannotate_annotate
   owner: iuc
   revisions:
-  - 14f588312c56
-  - 756376aeb1ae
   - 3bbe70fef6df
-  - 9c15ca7e764e
   - b6b5cd37f2a2
+  - 756376aeb1ae
   - 9f2455341fac
   - 582fd74dc2a1
+  - 9c15ca7e764e
+  - 14f588312c56
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: funannotate_clean
   owner: iuc
   revisions:
+  - 989f7c061f35
   - 0ffe5be70caf
-  - 30fb23d4c31c
   - 73428a792541
-  - a230ea445788
   - 8e1ace8f77c6
-  - 989f7c061f35
+  - a230ea445788
+  - 30fb23d4c31c
   - 1691af4a0d17
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: funannotate_compare
   owner: iuc
   revisions:
   - 494f0bb4a993
-  - 0418d28136de
   - 5a5ae61da69c
   - 30f08d74024f
   - e94187d661df
   - 57c6718cbfcc
   - 563a19373357
+  - 0418d28136de
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: funannotate_predict
   owner: iuc
   revisions:
-  - 4b96ced19f75
+  - f31125bb85ea
   - 1bc5a03faf2e
-  - f77d7b685bb3
+  - 7abc5f6dd595
+  - 4b96ced19f75
   - d6c7106b7b2e
+  - f77d7b685bb3
   - 2bba2ff070d9
-  - f31125bb85ea
-  - 7abc5f6dd595
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: funannotate_sort
   owner: iuc
   revisions:
-  - b3cf4684e9c7
+  - 52af33194019
   - 54961e026fe4
+  - d77fdcca400e
+  - b3cf4684e9c7
   - 520e30695ec3
   - d3af38b9c7e1
-  - 52af33194019
   - fed64e676186
-  - d77fdcca400e
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: get_orfs_or_cdss
@@ -215,8 +215,8 @@ tools:
   owner: iuc
   revisions:
   - 2aea122fbd25
-  - 07d7991bf205
   - 79261884facd
+  - 07d7991bf205
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: goenrichment
@@ -228,9 +228,9 @@ tools:
 - name: goseq
   owner: iuc
   revisions:
-  - 602de62d995b
-  - 43798b4caee0
   - ef2ad746b589
+  - 43798b4caee0
+  - 602de62d995b
   - 8b3e3657034e
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
@@ -262,9 +262,9 @@ tools:
 - name: interproscan
   owner: bgruening
   revisions:
+  - 74810db257cc
   - c55643c3d813
   - 98cafcbd2578
-  - 74810db257cc
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: jcvi_gff_stats
@@ -282,26 +282,26 @@ 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:
-  - 3c1a01127868
   - 370c210d9541
   - d46d803ca6cc
+  - 3c1a01127868
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: mitos2
   owner: iuc
   revisions:
+  - b815ec682418
+  - 033755194fe9
+  - c8ac28e8ac44
   - e95d52d295d7
   - 624606f7c996
-  - c8ac28e8ac44
-  - 033755194fe9
-  - b815ec682418
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: mob_suite
@@ -337,11 +337,11 @@ tools:
 - name: prokka
   owner: crs4
   revisions:
-  - 8a22554cdde2
-  - d643e3b03500
-  - eaee459f3d69
   - a17498c603ec
+  - d643e3b03500
+  - 8a22554cdde2
   - bf68eb663bc3
+  - eaee459f3d69
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: red
@@ -379,22 +379,22 @@ tools:
 - name: snpeff
   owner: iuc
   revisions:
-  - 5c7b70713fb5
-  - 268d162b9c49
-  - 68693743661e
-  - 8f92c2b26e6d
   - cfcf33df7fc0
   - 5b80f544c67f
   - 5a29ab10dba6
+  - 8f92c2b26e6d
+  - 5c7b70713fb5
+  - 68693743661e
+  - 268d162b9c49
   - 9473cd297a76
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: snpsift
   owner: iuc
   revisions:
-  - 5fab4f81391d
-  - 2b3e65a4252f
   - 09d6806c609e
+  - 2b3e65a4252f
+  - 5fab4f81391d
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: snptools
@@ -406,8 +406,8 @@ tools:
 - name: sortmerna
   owner: rnateam
   revisions:
-  - eb35257d2e29
   - 10b84b577117
+  - eb35257d2e29
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu
 - name: tbl2gff3
@@ -419,16 +419,16 @@ tools:
 - name: tbprofiler
   owner: iuc
   revisions:
-  - 37213cf56392
   - d03af1c7002c
-  - 037a11682176
-  - ac8250086ac3
-  - 4839e590cb26
-  - e1a9d6fd258d
-  - ba6f87115e13
-  - 809dfc93d593
   - 51dd22484644
+  - e1a9d6fd258d
+  - 4839e590cb26
+  - ac8250086ac3
   - 200c378d85f3
+  - 809dfc93d593
+  - 37213cf56392
+  - 037a11682176
+  - ba6f87115e13
   - 45083d070fb8
   tool_panel_section_label: Annotation
   tool_shed_url: toolshed.g2.bx.psu.edu