From bb07c7d0afd97bbe61ab93ef56caa894b4dc1a0a Mon Sep 17 00:00:00 2001 From: "UseGalaxy.EU Jenkins Bot" Date: Sun, 4 Aug 2024 20:03:37 +0200 Subject: [PATCH] Autoupdate tool blog post --- _posts/2024-08-04-tool-update.md | 113 +++++++++++++++++++++++++++++++ 1 file changed, 113 insertions(+) create mode 100644 _posts/2024-08-04-tool-update.md diff --git a/_posts/2024-08-04-tool-update.md b/_posts/2024-08-04-tool-update.md new file mode 100644 index 00000000..7be0b090 --- /dev/null +++ b/_posts/2024-08-04-tool-update.md @@ -0,0 +1,113 @@ +--- +site: freiburg +tags: [tools] +title: UseGalaxy.eu Tool Updates for 2024-08-04 +supporters: +- denbi +- elixir +--- + +On 2024-08-04, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in [Jenkins Build #468](https://build.galaxyproject.eu/job/usegalaxy-eu/job/install-tools/#468/) + + +## Climate Analysis + +- divand_full_analysis was updated to [484930fdc002](https://toolshed.g2.bx.psu.edu/view/ecology/divand_full_analysis/484930fdc002) + +## Get Data + +- argo_getdata was updated to [28c8f085d1b4](https://toolshed.g2.bx.psu.edu/view/ecology/argo_getdata/28c8f085d1b4) + +## Metabolomics + +- recetox_aplcms_align_features was updated to [79ad928a0dae](https://toolshed.g2.bx.psu.edu/view/recetox/recetox_aplcms_align_features/79ad928a0dae) +- recetox_aplcms_compute_clusters was updated to [f3a18e020cdd](https://toolshed.g2.bx.psu.edu/view/recetox/recetox_aplcms_compute_clusters/f3a18e020cdd) +- recetox_aplcms_compute_template was updated to [dfebc82ba1f0](https://toolshed.g2.bx.psu.edu/view/recetox/recetox_aplcms_compute_template/dfebc82ba1f0) +- recetox_aplcms_correct_time was updated to [9064aecc78a7](https://toolshed.g2.bx.psu.edu/view/recetox/recetox_aplcms_correct_time/9064aecc78a7) +- recetox_aplcms_generate_feature_table was updated to [b3413f335327](https://toolshed.g2.bx.psu.edu/view/recetox/recetox_aplcms_generate_feature_table/b3413f335327) +- recetox_aplcms_merge_known_table was updated to [17a48d0a80f4](https://toolshed.g2.bx.psu.edu/view/recetox/recetox_aplcms_merge_known_table/17a48d0a80f4) +- recetox_aplcms_recover_weaker_signals was updated to [d7f5878a98c3](https://toolshed.g2.bx.psu.edu/view/recetox/recetox_aplcms_recover_weaker_signals/d7f5878a98c3) +- recetox_aplcms_remove_noise was updated to [ffbabefbd2e2](https://toolshed.g2.bx.psu.edu/view/recetox/recetox_aplcms_remove_noise/ffbabefbd2e2) + +## QIIME 2 + +- qiime2__deblur__denoise_16S was updated to [2572fc0f88f2](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__deblur__denoise_16S/2572fc0f88f2) +- qiime2__deblur__denoise_16S was updated to [b883cbea5623](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__deblur__denoise_16S/b883cbea5623) + +## Proteomics + +- openms_openpepxl was updated to [a2a842b00f9c](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_openpepxl/a2a842b00f9c) +- openms_percolatoradapter was updated to [0fc9ae55bcfc](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_percolatoradapter/0fc9ae55bcfc) +- openms_percolatoradapter was updated to [e7881a82b56d](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_percolatoradapter/e7881a82b56d) +- openms_xfdr was updated to [81402a5e4173](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_xfdr/81402a5e4173) +- openms_xfdr was updated to [9a6e3bb0f358](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_xfdr/9a6e3bb0f358) +- qupath_roi_splitter was updated to [17c54a716a5b](https://toolshed.g2.bx.psu.edu/view/galaxyp/qupath_roi_splitter/17c54a716a5b) + +## ChemicalToolBox + +- alphafold2 was updated to [6ab1a261520a](https://toolshed.g2.bx.psu.edu/view/galaxy-australia/alphafold2/6ab1a261520a) + +## Graph/Display Data + +- jbrowse2 was updated to [878c27dfea9d](https://toolshed.g2.bx.psu.edu/view/fubar/jbrowse2/878c27dfea9d) + +## Imaging + +- bioimage_inference was updated to [caea9ee1ffac](https://toolshed.g2.bx.psu.edu/view/bgruening/bioimage_inference/caea9ee1ffac) +- scimap_anndata_to_csv was updated to [302ddf03402f](https://toolshed.g2.bx.psu.edu/view/goeckslab/scimap_anndata_to_csv/302ddf03402f) +- background_removal was updated to [6e9e98a7be4e](https://toolshed.g2.bx.psu.edu/view/imgteam/background_removal/6e9e98a7be4e) + +## Assembly + +- genomescope was updated to [460fad600dce](https://toolshed.g2.bx.psu.edu/view/iuc/genomescope/460fad600dce) +- salsa was updated to [58a870ef434c](https://toolshed.g2.bx.psu.edu/view/iuc/salsa/58a870ef434c) +- unicycler was updated to [e022dff952df](https://toolshed.g2.bx.psu.edu/view/iuc/unicycler/e022dff952df) +- yahs was updated to [ff4031bfaa22](https://toolshed.g2.bx.psu.edu/view/iuc/yahs/ff4031bfaa22) + +## Convert Formats + +- ucsc_maftoaxt was updated to [3a4256d4f079](https://toolshed.g2.bx.psu.edu/view/iuc/ucsc_maftoaxt/3a4256d4f079) + +## Metagenomic Analysis + +- bracken was updated to [0c7b6eb7e752](https://toolshed.g2.bx.psu.edu/view/iuc/bracken/0c7b6eb7e752) +- customize_metaphlan_database was updated to [a755466eb47c](https://toolshed.g2.bx.psu.edu/view/iuc/customize_metaphlan_database/a755466eb47c) +- extract_metaphlan_database was updated to [4b6ac1f0042b](https://toolshed.g2.bx.psu.edu/view/iuc/extract_metaphlan_database/4b6ac1f0042b) +- krakentools_combine_kreports was updated to [4960abe31b4d](https://toolshed.g2.bx.psu.edu/view/iuc/krakentools_combine_kreports/4960abe31b4d) +- merge_metaphlan_tables was updated to [05ad7d35ce92](https://toolshed.g2.bx.psu.edu/view/iuc/merge_metaphlan_tables/05ad7d35ce92) +- metaphlan was updated to [b6897977d13e](https://toolshed.g2.bx.psu.edu/view/iuc/metaphlan/b6897977d13e) +- mg_toolkit_bulk_download was updated to [a5eeaeba30d9](https://toolshed.g2.bx.psu.edu/view/iuc/mg_toolkit_bulk_download/a5eeaeba30d9) +- recentrifuge was updated to [d4fbfd31696c](https://toolshed.g2.bx.psu.edu/view/iuc/recentrifuge/d4fbfd31696c) + +## Mothur + +- mothur_align_seqs was updated to [152ae632ab19](https://toolshed.g2.bx.psu.edu/view/iuc/mothur_align_seqs/152ae632ab19) + +## Nanopore + +- clair3 was updated to [c8ba8286e7c0](https://toolshed.g2.bx.psu.edu/view/iuc/clair3/c8ba8286e7c0) + +## Phylogenetics + +- hyphy_prime was updated to [4072360120e4](https://toolshed.g2.bx.psu.edu/view/iuc/hyphy_prime/4072360120e4) + +## Single-cell + +- scanpy_cluster_reduce_dimension was updated to [64ff3ef24fae](https://toolshed.g2.bx.psu.edu/view/iuc/scanpy_cluster_reduce_dimension/64ff3ef24fae) +- scanpy_filter was updated to [aa0059118fb9](https://toolshed.g2.bx.psu.edu/view/iuc/scanpy_filter/aa0059118fb9) +- scanpy_normalize was updated to [f3ad813a58a3](https://toolshed.g2.bx.psu.edu/view/iuc/scanpy_normalize/f3ad813a58a3) +- scanpy_plot was updated to [70fa84e99463](https://toolshed.g2.bx.psu.edu/view/iuc/scanpy_plot/70fa84e99463) +- scanpy_remove_confounders was updated to [e66884b1c1a5](https://toolshed.g2.bx.psu.edu/view/iuc/scanpy_remove_confounders/e66884b1c1a5) + +## None + +- data_manager_diamond_database_builder was updated to [4a08b7b76b78](https://toolshed.g2.bx.psu.edu/view/iuc/data_manager_diamond_database_builder/4a08b7b76b78) + +## hca_sc_monocle3_tools + +- monocle3_reducedim was updated to [98f4918eee70](https://toolshed.g2.bx.psu.edu/view/ebi-gxa/monocle3_reducedim/98f4918eee70) + +## Muon Spectroscopy + +- mudirac was updated to [eaf0f01cc0f6](https://toolshed.g2.bx.psu.edu/view/muon-spectroscopy-computational-project/mudirac/eaf0f01cc0f6) +