From 9370bd942c714b0549782ea63874172753ae0e5c Mon Sep 17 00:00:00 2001 From: martenson <1814954+martenson@users.noreply.github.com> Date: Wed, 11 Nov 2026 16:04:52 +0000 Subject: [PATCH] Update all tools of usegalaxy.cz --- usegalaxy.cz/annotation.yml.lock | 38 +++++++++++++ usegalaxy.cz/assembly.yml.lock | 27 ++++++++++ usegalaxy.cz/convert_formats.yml.lock | 12 +++++ usegalaxy.cz/epigenetics.yml.lock | 3 ++ usegalaxy.cz/evolution.yml.lock | 5 ++ usegalaxy.cz/extract_features.yml.lock | 1 + usegalaxy.cz/fasta_fastq.yml.lock | 40 ++++++++++++++ .../fetch_sequences___alignments.yml.lock | 2 + usegalaxy.cz/gemini.yml.lock | 18 +++++++ usegalaxy.cz/genome_diversity.yml.lock | 1 + usegalaxy.cz/genome_editing.yml.lock | 6 +++ usegalaxy.cz/get_data.yml.lock | 2 + usegalaxy.cz/graph_display_data.yml.lock | 17 ++++++ usegalaxy.cz/imaging.yml.lock | 1 + .../join__subtract_and_group.yml.lock | 1 + usegalaxy.cz/machine_learning.yml.lock | 25 +++++++++ usegalaxy.cz/mapping.yml.lock | 10 ++++ usegalaxy.cz/metabolomics.yml.lock | 21 ++++++++ usegalaxy.cz/metagenomic_analysis.yml.lock | 50 +++++++++++++++++ usegalaxy.cz/motif_tools.yml.lock | 5 ++ usegalaxy.cz/multiple_alignments.yml.lock | 6 +++ usegalaxy.cz/nanopore.yml.lock | 3 ++ usegalaxy.cz/ncbi_blast.yml.lock | 6 +++ usegalaxy.cz/peak_calling.yml.lock | 4 ++ usegalaxy.cz/phylogenetics.yml.lock | 2 + usegalaxy.cz/picard.yml.lock | 1 + usegalaxy.cz/proteomics.yml.lock | 5 ++ usegalaxy.cz/quality_control.yml.lock | 2 + usegalaxy.cz/rad_seq.yml.lock | 21 ++++++++ usegalaxy.cz/rna_analysis.yml.lock | 33 ++++++++++++ usegalaxy.cz/sam_bam.yml.lock | 1 + usegalaxy.cz/send_data.yml.lock | 1 + usegalaxy.cz/single_cell.yml.lock | 13 +++++ usegalaxy.cz/statistics.yml.lock | 5 ++ usegalaxy.cz/text_manipulation.yml.lock | 6 +++ usegalaxy.cz/variant_calling.yml.lock | 54 +++++++++++++++++++ usegalaxy.cz/vcf_bcf.yml.lock | 21 ++++++++ usegalaxy.cz/virology.yml.lock | 7 +++ 38 files changed, 476 insertions(+) diff --git a/usegalaxy.cz/annotation.yml.lock b/usegalaxy.cz/annotation.yml.lock index df21e13..1ade8b2 100644 --- a/usegalaxy.cz/annotation.yml.lock +++ b/usegalaxy.cz/annotation.yml.lock @@ -54,6 +54,7 @@ tools: - name: prokka owner: crs4 revisions: + - 8096daf9ce73 - 8a22554cdde2 - c105b66eaab1 tool_panel_section_id: annotation @@ -61,6 +62,7 @@ tools: - name: roary owner: iuc revisions: + - 3f12675edf68 - 91887494eb97 - 9b2b122d0415 tool_panel_section_id: annotation @@ -77,6 +79,7 @@ tools: - name: hmmer_nhmmer owner: iuc revisions: + - 1a1e39306e04 - 54b92ae4f75b - b28e8ed99424 tool_panel_section_id: annotation @@ -84,6 +87,7 @@ tools: - name: hmmer_hmmbuild owner: iuc revisions: + - 104799b39986 - 4b996c837ec8 - dc8860ba75d1 tool_panel_section_id: annotation @@ -93,6 +97,7 @@ tools: revisions: - 4a54e4c9188b - be072920a53e + - ec70edb4acd4 tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: hmmer_phmmer @@ -100,6 +105,7 @@ tools: revisions: - 37bcc9fb0bb1 - 8a791afd99fb + - b68f1c97f63d tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: hmmer_jackhmmer @@ -107,18 +113,21 @@ tools: revisions: - 6e27bb3f0fa6 - 9fdeca68a6b5 + - b2f12ceedacf tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: hmmer_nhmmscan owner: iuc revisions: - e07176c0925d + - e20829923d8b - fb1305d0d1c6 tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: hmmer_hmmsearch owner: iuc revisions: + - 08cbaba779b2 - d753d9169482 - df7a52791be9 tool_panel_section_id: annotation @@ -128,6 +137,7 @@ tools: revisions: - 23494763e39e - 8ec7636fa875 + - 900a5db3f23a - f3534b94ad05 tool_panel_section_id: annotation tool_panel_section_label: Annotation @@ -201,6 +211,7 @@ tools: owner: iuc revisions: - 31812e7a1315 + - 578b60b1279d - ef1966bcece3 tool_panel_section_id: annotation tool_panel_section_label: Annotation @@ -228,6 +239,7 @@ tools: owner: iuc revisions: - 3f5fc4b09496 + - 738875f13f9c - d516fc63b6e5 tool_panel_section_id: annotation tool_panel_section_label: Annotation @@ -236,11 +248,13 @@ tools: revisions: - 885459e1c83b - a05b6a392ff0 + - ed51b2277b0d tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: transit_hmm owner: iuc revisions: + - 6dbde7d2485e - 7db455b6434b - d6b029a6de63 tool_panel_section_id: annotation @@ -248,6 +262,7 @@ tools: - name: transit_gumbel owner: iuc revisions: + - 3b1e4eb22a7c - 8fc50fe60127 - a6c8b6e47c51 tool_panel_section_id: annotation @@ -294,6 +309,7 @@ tools: revisions: - 07d7991bf205 - 661c164268cc + - 661f6905c142 tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: gprofiler_snpense @@ -362,6 +378,7 @@ tools: - 9bc5cdefb090 - 9cd341095afd - aff5135563c6 + - b6236eb1a50b tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: socru @@ -374,6 +391,7 @@ tools: owner: iuc revisions: - 602de62d995b + - 8f51a7500540 tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: snap_training @@ -403,6 +421,7 @@ tools: - 65c38d020fea - b482293b2987 - eb35257d2e29 + - f7746d145125 tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: spaln @@ -446,6 +465,7 @@ tools: owner: iuc revisions: - 857e8724b43f + - b8576e40c078 tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: picrust_format_tree_and_trait_table @@ -464,6 +484,7 @@ tools: - name: picrust_predict_metagenomes owner: iuc revisions: + - 6b4199bbc9be - f17b7d5a87f7 tool_panel_section_id: annotation tool_panel_section_label: Annotation @@ -485,6 +506,7 @@ tools: revisions: - 012171ba9fce - 42b38f6d9f68 + - 92390a2cbb12 tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: segmentation_fold @@ -497,6 +519,7 @@ tools: - name: gubbins owner: iuc revisions: + - 6ecd78daae1b - 96e6283e4745 - b7e91ff1a894 tool_panel_section_id: annotation @@ -549,6 +572,7 @@ tools: - name: orthofinder_onlygroups owner: iuc revisions: + - 27dc25864cb7 - 3b974afde673 - b3d25fae5389 - b6ec80429d54 @@ -565,6 +589,7 @@ tools: revisions: - 80c713789d13 - a30ef2a2b3a9 + - c18dbffbc454 - e3e5f208e93c tool_panel_section_id: annotation tool_panel_section_label: Annotation @@ -573,18 +598,21 @@ tools: revisions: - 24fa8e890f08 - 71863d3bf721 + - e26abfad8ce5 tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: hmmer_hmmconvert owner: iuc revisions: - a9dace1a1e36 + - cbf88bb8b945 - db8a5a3195e7 tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: hmmer_hmmemit owner: iuc revisions: + - 544bf9c95490 - 82d6ca8212dc - 96b127c59e6a - be03abdc6451 @@ -594,6 +622,7 @@ tools: owner: iuc revisions: - 34b09461bf87 + - 64271199b179 - a28fd001de59 tool_panel_section_id: annotation tool_panel_section_label: Annotation @@ -633,6 +662,7 @@ tools: - name: glimmer_build_icm owner: bgruening revisions: + - b165a00dd7e9 - cc51783dc93c - e903e26c014d tool_panel_section_id: annotation @@ -642,6 +672,7 @@ tools: revisions: - 21d0af260f11 - ce89c473666d + - fc41a852f91e tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: glimmer_not_knowledge_based @@ -649,6 +680,7 @@ tools: revisions: - 73c58e2debd0 - 75cedbd8cf1b + - e9fcf3641fb2 tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: tbvcfreport @@ -743,6 +775,7 @@ tools: - name: te_finder owner: iuc revisions: + - 0f7eee2d0a9d - 2edb80d68a1b tool_panel_section_id: annotation tool_panel_section_label: Annotation @@ -761,6 +794,7 @@ tools: - 52bdc302299b - 6b20d051d0dc - ce04c239454b + - fb8b3a37ac9c tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: netboxr @@ -774,6 +808,7 @@ tools: revisions: - 507d59b036c5 - 7075b7a5441b + - 8621b220c13e tool_panel_section_id: annotation tool_panel_section_label: Annotation - name: miniprot_index @@ -814,6 +849,7 @@ tools: - 1942e86e2ee1 - 292eea8defa7 - 728dacaf08a9 + - c03be23045b7 - d77802fe76f7 - da5f1924bb2e tool_panel_section_id: annotation @@ -821,6 +857,7 @@ tools: - name: cpat owner: bgruening revisions: + - 4594ca417b13 - 7ccc6234b54e - 8e9e228c54c4 tool_panel_section_id: annotation @@ -865,6 +902,7 @@ tools: owner: bgruening revisions: - 6d8be3337e2a + - a069e75a344f - d6ede73082da - e009d8260be2 tool_panel_section_id: annotation diff --git a/usegalaxy.cz/assembly.yml.lock b/usegalaxy.cz/assembly.yml.lock index 20d2fd2..4844c9b 100644 --- a/usegalaxy.cz/assembly.yml.lock +++ b/usegalaxy.cz/assembly.yml.lock @@ -17,6 +17,7 @@ tools: revisions: - 43edaa0b6f3d - cf54dafa0403 + - df0be51840d5 tool_panel_section_id: assembly tool_panel_section_label: Assembly - name: purge_dups @@ -47,6 +48,7 @@ tools: owner: iuc revisions: - 06bcf65179fb + - 54cf5a9ee329 - 611219887a48 - 8b330a577046 - ba88bc5a6446 @@ -59,6 +61,7 @@ tools: - 170061c052ad - 5d365d5cbe9d - 60024a528cbd + - b562f08eb13a - baf229b1fdfd - c388a21dcbf1 - e5e767089163 @@ -90,6 +93,7 @@ tools: - 015283de3004 - 24e471d13fe9 - 5a0ddb4dc3a4 + - 806d8eeb716b tool_panel_section_id: assembly tool_panel_section_label: Assembly - name: trycycler_cluster @@ -97,12 +101,14 @@ tools: revisions: - 0368ac680e70 - 505a9833ab5d + - 8bedb8218eaa - 8f631679571f tool_panel_section_id: assembly tool_panel_section_label: Assembly - name: trycycler_consensus owner: iuc revisions: + - 04fa86d6e8e6 - 19bdfd1e6fe3 - 9ded6109434a - a7ed21de23fe @@ -114,6 +120,7 @@ tools: - 7673a6c920b2 - 80a17897564d - b23249f81bc4 + - c9dca11222a6 tool_panel_section_id: assembly tool_panel_section_label: Assembly - name: trycycler_reconcile_msa @@ -121,6 +128,7 @@ tools: revisions: - 394a5d236e29 - 59bd28f6265d + - b833dd2de66b - cb1e3db43020 - ed312479d9eb tool_panel_section_id: assembly @@ -130,6 +138,7 @@ tools: revisions: - 05bd7504fdb2 - 2628f6790eda + - 52d46473e265 - b9b0246a2be3 tool_panel_section_id: assembly tool_panel_section_label: Assembly @@ -221,6 +230,7 @@ tools: - 02a822e32de7 - 14ddfc8ffb93 - 7518ee87b53d + - 792acb18fb24 - 98242353faa4 - ab208c87d973 - de387b2b2803 @@ -268,6 +278,7 @@ tools: - 1ce9b1d72ec3 - 276f5d8712d5 - 3ee0ef312022 + - 5b21fbc080f2 - 643e0ff70be5 - 8d4f03b5fe9d - cb8dfd28c16f @@ -289,6 +300,7 @@ tools: - 81df4950d65b - 875d0f36d66f - a3b35edea53a + - baeffe7bfe47 - cbc516cee202 - ebb0dcdb621a tool_panel_section_id: assembly @@ -296,6 +308,7 @@ tools: - name: miniasm owner: iuc revisions: + - 691bdc4cc8f0 - 80d1250bd5fd - b799a615995d tool_panel_section_id: assembly @@ -327,6 +340,7 @@ tools: - 33368fec3b70 - 822954de3f59 - b512435320e3 + - d55d7058fb39 tool_panel_section_id: assembly tool_panel_section_label: Assembly - name: velvetoptimiser @@ -340,6 +354,7 @@ tools: owner: iuc revisions: - 11e5408fd238 + - 868053394d61 tool_panel_section_id: assembly tool_panel_section_label: Assembly - name: wtdbg @@ -355,6 +370,7 @@ tools: - 04d81e5f25e9 - 2ecf5a570907 - 434f2a6c3ade + - 5381d83e9492 - 697c9156dafe - f192c2fbe13f - fd128c111ab0 @@ -372,6 +388,7 @@ tools: - 001aa495b39a - 1d06c8b38e77 - 5bd3f053c303 + - 87ab790abdf6 - aa1ac2f7a688 - c6ba8470ed01 tool_panel_section_id: assembly @@ -417,6 +434,7 @@ tools: - name: minced owner: bgruening revisions: + - 9bfc95562fd4 - e8cbdbc4de58 tool_panel_section_id: assembly tool_panel_section_label: Assembly @@ -486,6 +504,7 @@ tools: owner: iuc revisions: - 22fe35346d69 + - c4585558c029 - d7c48cf1bf50 tool_panel_section_id: assembly tool_panel_section_label: Assembly @@ -493,6 +512,7 @@ tools: owner: iuc revisions: - 7170a53ee406 + - 9c9646309b04 - a9aa4115cb68 - d5645713603a - d5fb354f745d @@ -507,11 +527,13 @@ tools: - 6fb81bb0fe3e - b40b77418372 - c4e781659379 + - d2ebe2f4ac68 tool_panel_section_id: assembly tool_panel_section_label: Assembly - name: spades_metaviralspades owner: iuc revisions: + - 02e9389b4517 - 328aa71f0f3c - 6766a94ef559 - c4ba6aa27088 @@ -522,6 +544,7 @@ tools: - name: spades_metaplasmidspades owner: iuc revisions: + - 2c86bbf5db00 - 9911ca348668 - ae96f644b722 - c5c4fa59be65 @@ -537,6 +560,7 @@ tools: - 2c650dcc6190 - 2cf8a2028ddc - 34305b013402 + - 3f9338d118f6 tool_panel_section_id: assembly tool_panel_section_label: Assembly - name: spades_biosyntheticspades @@ -547,12 +571,14 @@ tools: - 5e7a2a927b56 - 60b8f1668552 - afac6d6bd02b + - b321487d5cd9 tool_panel_section_id: assembly tool_panel_section_label: Assembly - name: links owner: iuc revisions: - 7acd9ade2dd1 + - 97a0a07d9bdb tool_panel_section_id: assembly tool_panel_section_label: Assembly - name: aligned_to_consensus @@ -654,6 +680,7 @@ tools: - 15dbb444df71 - 213df31ba341 - fa35f1106d3e + - fd7995e06d6a tool_panel_section_id: assembly tool_panel_section_label: Assembly - name: blobtoolkit diff --git a/usegalaxy.cz/convert_formats.yml.lock b/usegalaxy.cz/convert_formats.yml.lock index 00b3353..8ad44c9 100644 --- a/usegalaxy.cz/convert_formats.yml.lock +++ b/usegalaxy.cz/convert_formats.yml.lock @@ -7,6 +7,7 @@ tools: revisions: - 6d8444408ff1 - 6d8be3337e2a + - a069e75a344f - d6ede73082da - e009d8260be2 tool_panel_section_id: convert_formats @@ -21,6 +22,7 @@ tools: owner: bgruening revisions: - 3d71ab1562d7 + - 7a299251aeb7 - 891b330ffd94 tool_panel_section_id: convert_formats tool_panel_section_label: Convert Formats @@ -42,6 +44,7 @@ tools: owner: devteam revisions: - 2dcfbbf9071a + - 6fe60ee81d7a - 78fb18899c99 - 92034dcbb40a tool_panel_section_id: convert_formats @@ -77,6 +80,7 @@ tools: revisions: - 1080e07a2233 - 7adddc6015c1 + - acb6bbd14094 tool_panel_section_id: convert_formats tool_panel_section_label: Convert Formats - name: crossmap_wig @@ -114,6 +118,7 @@ tools: - name: genebed_maf_to_fasta owner: iuc revisions: + - 285afb58a631 - e25ee6bac872 tool_panel_section_id: convert_formats tool_panel_section_label: Convert Formats @@ -160,6 +165,7 @@ tools: - name: biom_convert owner: iuc revisions: + - 081cc9a9a738 - b3858ab7f598 - d4d4e9febf5c - e177a8ea0bf1 @@ -177,6 +183,7 @@ tools: revisions: - 154d00cbbf2d - 3e436657dcd0 + - 88fecd593368 tool_panel_section_id: convert_formats tool_panel_section_label: Convert Formats - name: msms_extractor @@ -201,11 +208,13 @@ tools: - 77f67ddd89d6 - 7e2ee5f43778 - ab55af10f1ff + - db7c0226ebd9 tool_panel_section_id: convert_formats tool_panel_section_label: Convert Formats - name: graphicsmagick_image_convert owner: bgruening revisions: + - 0648279794e5 - 0ecf92b5a7c5 - 3ae9331790a6 - 4e9a3745dce4 @@ -232,12 +241,14 @@ tools: - name: gtftobed12 owner: iuc revisions: + - 33de73363690 - b026dae67fba tool_panel_section_id: convert_formats tool_panel_section_label: Convert Formats - name: ucsc_twobittofa owner: iuc revisions: + - 549bf96a2b5b - 6e1aa95afa75 - 8067dfa00ed2 - e9bbe2f71784 @@ -259,6 +270,7 @@ tools: - name: bioext_bam2msa owner: iuc revisions: + - 28e85c2ef178 - 359e043a285c - 767943cd85bf - f287fbd75138 diff --git a/usegalaxy.cz/epigenetics.yml.lock b/usegalaxy.cz/epigenetics.yml.lock index 0f8ec01..0b47d3c 100644 --- a/usegalaxy.cz/epigenetics.yml.lock +++ b/usegalaxy.cz/epigenetics.yml.lock @@ -30,6 +30,7 @@ tools: owner: iuc revisions: - 214874e24cd6 + - 9ba290647b05 tool_panel_section_id: epigenetics tool_panel_section_label: Epigenetics - name: ewastools @@ -42,6 +43,7 @@ tools: - name: metilene owner: rnateam revisions: + - 2de4266c06cc - 37abd09a0ae6 tool_panel_section_id: epigenetics tool_panel_section_label: Epigenetics @@ -58,6 +60,7 @@ tools: owner: bgruening revisions: - d6787bab7b11 + - f8369439d35a tool_panel_section_id: epigenetics tool_panel_section_label: Epigenetics - name: hicup_truncater diff --git a/usegalaxy.cz/evolution.yml.lock b/usegalaxy.cz/evolution.yml.lock index 87cc70b..5c21ea3 100644 --- a/usegalaxy.cz/evolution.yml.lock +++ b/usegalaxy.cz/evolution.yml.lock @@ -22,6 +22,7 @@ tools: - name: codeml owner: iuc revisions: + - 8cb34dd46b16 - dba114391c98 - f9cb3a4339c2 tool_panel_section_id: evolution @@ -46,6 +47,7 @@ tools: - 4ac97ae01aba - a9d66dc6a767 - b38f620a3628 + - fa40cbd6f751 tool_panel_section_id: evolution tool_panel_section_label: Evolution - name: tn93_filter @@ -54,6 +56,7 @@ tools: - 017db1b776d9 - 1779a96f1d7c - 1aa73004ba9b + - bdbed8e581c6 - cf50aeb956f2 - e623a56a6470 tool_panel_section_id: evolution @@ -64,6 +67,7 @@ tools: - 112d80c9ccca - 476189b83931 - 9b04e4d36b82 + - c5d30f16c6c0 - e0448bc48085 - eb6f0ec5b95e tool_panel_section_id: evolution @@ -73,6 +77,7 @@ tools: revisions: - 1d2ec0b0a0a7 - 4e68161336da + - 5879d2d024a2 - 767905ef0314 - c176164dc8a5 - d9a642ad8ece diff --git a/usegalaxy.cz/extract_features.yml.lock b/usegalaxy.cz/extract_features.yml.lock index e8c2c29..f4bb509 100644 --- a/usegalaxy.cz/extract_features.yml.lock +++ b/usegalaxy.cz/extract_features.yml.lock @@ -5,6 +5,7 @@ tools: - name: length_and_gc_content owner: iuc revisions: + - 0e7eadbd461c - e3ba567abdf5 - f088370d2a3c tool_panel_section_id: extract_features diff --git a/usegalaxy.cz/fasta_fastq.yml.lock b/usegalaxy.cz/fasta_fastq.yml.lock index 1c810c2..dac502d 100644 --- a/usegalaxy.cz/fasta_fastq.yml.lock +++ b/usegalaxy.cz/fasta_fastq.yml.lock @@ -12,6 +12,7 @@ tools: - 8c0175e03cee - 8e264b67a8c0 - c0b2c2e39c9c + - e075c7e866d1 - f6168dd17f82 tool_panel_section_id: fasta_fastq tool_panel_section_label: FASTA/FASTQ @@ -50,6 +51,7 @@ tools: - name: fastq_trimmer owner: devteam revisions: + - 8b70bb07960c - b63b2bfb3ea3 - f0b18efb97f1 - fe86fb89562d @@ -66,12 +68,14 @@ tools: revisions: - 297962e79f39 - 4a3e93647a4e + - 5e0a8c02887c - ac3fed111eb6 tool_panel_section_id: fasta_fastq tool_panel_section_label: FASTA/FASTQ - name: fastq_stats owner: devteam revisions: + - e4c69443362d - f0e7deab6518 - f86c27295151 tool_panel_section_id: fasta_fastq @@ -81,12 +85,14 @@ tools: revisions: - 43807a65369f - 4b347702c4aa + - 9af11085c5c6 tool_panel_section_id: fasta_fastq tool_panel_section_label: FASTA/FASTQ - name: fastq_combiner owner: devteam revisions: - 9115b978ce10 + - b1688ee63a38 - f1dc2a761c30 tool_panel_section_id: fasta_fastq tool_panel_section_label: FASTA/FASTQ @@ -94,6 +100,7 @@ tools: owner: devteam revisions: - '144275714590' + - 242f90a25c1d - 81a9090d6df3 - ff7d49ec777f tool_panel_section_id: fasta_fastq @@ -104,12 +111,14 @@ tools: - 10d4df6a9d94 - 47e5dbc3e790 - e9f8633db0a2 + - ed6b5c0c1e8d tool_panel_section_id: fasta_fastq tool_panel_section_label: FASTA/FASTQ - name: fastq_manipulation owner: devteam revisions: - 5b87038565bb + - 8a2a1f60d8a9 - e06d41f3ed3e - e30352e889fe tool_panel_section_id: fasta_fastq @@ -117,6 +126,7 @@ tools: - name: fastq_masker_by_quality owner: devteam revisions: + - 4b54f901d193 - 4e1d64e6385f - 9dfda4e310ed tool_panel_section_id: fasta_fastq @@ -124,6 +134,7 @@ tools: - name: fastq_paired_end_deinterlacer owner: devteam revisions: + - 33e27e311d03 - 523c2aff0376 - c48cf4699be7 - f3936d0632cb @@ -132,6 +143,7 @@ tools: - name: fastq_paired_end_interlacer owner: devteam revisions: + - 060e4a536555 - 2ccb8dcabddc - acb5090e281f - b41c2c1bcfbf @@ -141,6 +153,7 @@ tools: owner: devteam revisions: - 115f6bb3ae79 + - 791e195810ad - 8d958759cf2a - c885369b207b tool_panel_section_id: fasta_fastq @@ -150,6 +163,7 @@ tools: revisions: - 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4daabc25df00 - 5b097fde95dd + - baa38def0230 tool_panel_section_id: multiple_alignments tool_panel_section_label: Multiple Alignments - name: sina @@ -32,12 +33,14 @@ tools: owner: iuc revisions: - 0c84cce7b030 + - 4c8bab9ae1b1 - 87c1c223c704 tool_panel_section_id: multiple_alignments tool_panel_section_label: Multiple Alignments - name: mummer_mummer owner: iuc revisions: + - 0f7ebb3a2f0e - 355f84a894bf - b7bc272143fb - bcd65de9725b @@ -47,6 +50,7 @@ tools: owner: iuc revisions: - 029a793f39b6 + - 0f42cf7485e8 - 4fc0cb2ac8ae - 75e15ee43896 tool_panel_section_id: multiple_alignments @@ -65,6 +69,7 @@ tools: - 27fff8d3793e - 298dceed950c - 2d2fe522553d + - a79662294201 - e18267f90096 tool_panel_section_id: multiple_alignments tool_panel_section_label: Multiple Alignments @@ -87,6 +92,7 @@ tools: - name: kc_align owner: iuc revisions: + - 1e273199758f - 97476dfde728 tool_panel_section_id: multiple_alignments tool_panel_section_label: Multiple Alignments diff --git a/usegalaxy.cz/nanopore.yml.lock b/usegalaxy.cz/nanopore.yml.lock index 5bb84c2..91c0212 100644 --- a/usegalaxy.cz/nanopore.yml.lock +++ b/usegalaxy.cz/nanopore.yml.lock @@ -14,6 +14,7 @@ tools: - name: flair_correct owner: iuc revisions: + - b94246158e74 - c784170f3b5e tool_panel_section_id: nanopore tool_panel_section_label: Nanopore @@ -21,6 +22,7 @@ tools: owner: iuc revisions: - 1fdcbfcca71c + - e6a9bf0a801e tool_panel_section_id: nanopore tool_panel_section_label: Nanopore - name: ngmlr @@ -157,6 +159,7 @@ tools: revisions: - 543cbeef3949 - a2899db6bd6e + - c398c6b9381f tool_panel_section_id: nanopore tool_panel_section_label: Nanopore - name: poretools_times diff --git a/usegalaxy.cz/ncbi_blast.yml.lock b/usegalaxy.cz/ncbi_blast.yml.lock index f1f1493..d2eaa35 100644 --- a/usegalaxy.cz/ncbi_blast.yml.lock +++ b/usegalaxy.cz/ncbi_blast.yml.lock @@ -14,6 +14,7 @@ tools: - 6560192c5098 - 6f386c5dc4fb - 70e7dcbf6573 + - 71a9b71a2fa1 - 7538e2bfcd41 - 7f3c448e119b - 9dabbfd73c8a @@ -44,6 +45,7 @@ tools: - name: taxonomy_krona_chart owner: crs4 revisions: + - 01a54504b6aa - 7d01da0b9e18 - c9f8fef1df74 - e9005d1f3cfd @@ -55,6 +57,7 @@ tools: - 8cebdc74a48f - 9bdcba262627 - bc3e90fd13be + - f48bf782723a tool_panel_section_id: ncbi_blast tool_panel_section_label: NCBI Blast - name: kraken_filter @@ -63,6 +66,7 @@ tools: - 3d6570bffdb1 - 5bee9adae474 - 67236d921e83 + - c605203be45d tool_panel_section_id: ncbi_blast tool_panel_section_label: NCBI Blast - name: blast_rbh @@ -100,6 +104,7 @@ tools: - 428de92eac6b - 6ffff37d3daf - a9c9d768b751 + - e629753431f5 tool_panel_section_id: ncbi_blast tool_panel_section_label: NCBI Blast - name: kraken_taxonomy_report @@ -113,6 +118,7 @@ tools: - name: magicblast owner: iuc revisions: + - 348dde0b04a1 - 34ac212ef95e - 79f4f8bd0e34 tool_panel_section_id: ncbi_blast diff --git a/usegalaxy.cz/peak_calling.yml.lock b/usegalaxy.cz/peak_calling.yml.lock index bf95d5a..5efc4ce 100644 --- a/usegalaxy.cz/peak_calling.yml.lock +++ b/usegalaxy.cz/peak_calling.yml.lock @@ -24,12 +24,14 @@ tools: owner: iuc revisions: - 8353f3cc03db + - 9dcc695d5242 tool_panel_section_id: peak_calling tool_panel_section_label: Peak Calling - name: diffbind owner: bgruening revisions: - 194e3f2c1d86 + - 35da05f22058 - f907216064f6 tool_panel_section_id: peak_calling tool_panel_section_label: Peak Calling @@ -38,6 +40,7 @@ tools: revisions: - 640d3af5d833 - 86e2413cf3f8 + - d8362a868940 tool_panel_section_id: peak_calling tool_panel_section_label: Peak Calling - name: peakachu @@ -84,5 +87,6 @@ tools: revisions: - ccc755bdf11d - d6787bab7b11 + - f8369439d35a tool_panel_section_id: peak_calling tool_panel_section_label: Peak Calling diff --git a/usegalaxy.cz/phylogenetics.yml.lock b/usegalaxy.cz/phylogenetics.yml.lock index ff47d36..b5a2b2d 100644 --- a/usegalaxy.cz/phylogenetics.yml.lock +++ b/usegalaxy.cz/phylogenetics.yml.lock @@ -379,6 +379,7 @@ tools: owner: iuc revisions: - 6077821e8ae7 + - 80c3d1d9559e - f53beb324696 - fc95788aff90 tool_panel_section_id: phylogenetics @@ -386,6 +387,7 @@ tools: - name: picrust2_pipeline owner: iuc revisions: + - 323e5669975a - 540aedfc81c7 - d6bb2e3febda tool_panel_section_id: phylogenetics diff --git a/usegalaxy.cz/picard.yml.lock b/usegalaxy.cz/picard.yml.lock index bf2b03a..2146b88 100644 --- a/usegalaxy.cz/picard.yml.lock +++ b/usegalaxy.cz/picard.yml.lock @@ -10,6 +10,7 @@ tools: - 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'454473065611' - 4d4df9779b7b - f05dfa43240f tool_panel_section_id: proteomics diff --git a/usegalaxy.cz/quality_control.yml.lock b/usegalaxy.cz/quality_control.yml.lock index 88f4a0a..1725f32 100644 --- a/usegalaxy.cz/quality_control.yml.lock +++ b/usegalaxy.cz/quality_control.yml.lock @@ -15,6 +15,7 @@ tools: - 5e33b465d8d5 - 75c93c70d094 - 862943c10425 + - 94b6bea727ae - 97255f6fdf7e - 9a913cdee30e - a7e081ceb76a @@ -33,6 +34,7 @@ tools: - name: fastq_info owner: bgruening revisions: + - 2bca15e630a4 - 7a821cd57b43 tool_panel_section_id: quality_control tool_panel_section_label: Quality Control diff --git a/usegalaxy.cz/rad_seq.yml.lock b/usegalaxy.cz/rad_seq.yml.lock index 6bbb93f..4c196fa 100644 --- a/usegalaxy.cz/rad_seq.yml.lock +++ b/usegalaxy.cz/rad_seq.yml.lock @@ -13,11 +13,13 @@ tools: revisions: - 38ecfb8d52c6 - 6eaf0f9836c8 + - fdbed68f179f tool_panel_section_id: rad_seq tool_panel_section_label: RAD-seq - name: stacks_cstacks owner: iuc revisions: + - 1bd61efeff47 - 40cde06ae34a - be3df81c0353 tool_panel_section_id: rad_seq @@ -26,12 +28,14 @@ tools: owner: iuc revisions: - 8123ca2d9351 + - a4fb78d0b9e8 - c287418eb288 tool_panel_section_id: rad_seq tool_panel_section_label: RAD-seq - name: stacks2_kmerfilter owner: iuc revisions: + - 7d9aa0dc2d59 - a3e86cd9cac7 - af2881556a67 tool_panel_section_id: rad_seq @@ -41,6 +45,7 @@ tools: revisions: - 110a346daf36 - 7b699cc7aaa9 + - 9a884520017b tool_panel_section_id: rad_seq tool_panel_section_label: RAD-seq - name: stacks2_tsv2bam @@ -48,11 +53,13 @@ tools: revisions: - 2645575d1bf2 - 79ee594e7c3b + - c12141843d32 tool_panel_section_id: rad_seq tool_panel_section_label: RAD-seq - name: stacks2_refmap owner: iuc revisions: + - 4c84b488deb2 - adc7a7610d4f - eae928f7fcb3 tool_panel_section_id: rad_seq @@ -60,6 +67,7 @@ tools: - name: stacks2_denovomap owner: iuc revisions: + - 01854af3b1ed - 33486216eec0 - 9e8a17579a2d tool_panel_section_id: rad_seq @@ -68,6 +76,7 @@ tools: owner: iuc revisions: - 8cff84759bf6 + - bfef17191aa6 - e0bf5d9cd05a tool_panel_section_id: rad_seq tool_panel_section_label: RAD-seq @@ -76,11 +85,13 @@ tools: revisions: - 564c33e5c3e3 - 94025494f95d + - f6446f2f1045 tool_panel_section_id: rad_seq tool_panel_section_label: RAD-seq - name: stacks2_gstacks owner: iuc revisions: + - 878ddc285280 - ab3df2172960 - fa51dc5e8386 tool_panel_section_id: rad_seq @@ -88,6 +99,7 @@ tools: - name: stacks2_sstacks owner: iuc revisions: + - 4c29c999ef8d - 53fd063fcc0f - a819ec3b362d tool_panel_section_id: rad_seq @@ -97,12 +109,14 @@ tools: revisions: - 42d9087b4789 - 994c77aeeef1 + - 9dd57d7dc863 tool_panel_section_id: rad_seq tool_panel_section_label: RAD-seq - name: stacks2_ustacks owner: iuc revisions: - 912f904a6e1e + - bfe47ec761a0 - fa65e5e7577f tool_panel_section_id: rad_seq tool_panel_section_label: RAD-seq @@ -110,6 +124,7 @@ tools: owner: iuc revisions: - 95286af4139b + - ac2d98d6ff8e - d1fad35bdb4a tool_panel_section_id: rad_seq tool_panel_section_label: RAD-seq @@ -118,6 +133,7 @@ tools: revisions: - 3009a21724e7 - 60d86dc1b19d + - 7bf2ace33b02 tool_panel_section_id: rad_seq tool_panel_section_label: RAD-seq - name: stacks_stats @@ -139,11 +155,13 @@ tools: revisions: - 46f061f3cfeb - 62a4b8e5e139 + - ccadf9b291cd tool_panel_section_id: rad_seq tool_panel_section_label: RAD-seq - name: stacks_denovomap owner: iuc revisions: + - 48b49c5b3427 - 9f9d39f582f3 - fdbcc560c691 tool_panel_section_id: rad_seq @@ -158,6 +176,7 @@ tools: - name: stacks_procrad owner: iuc revisions: + - 343073e3b095 - be78e39d56b3 - eded025438db tool_panel_section_id: rad_seq @@ -166,12 +185,14 @@ tools: owner: iuc revisions: - 1ba1185929c1 + - 8b6f471264f0 - d7a482f44e08 tool_panel_section_id: rad_seq tool_panel_section_label: RAD-seq - name: stacks_rxstacks owner: iuc revisions: + - 33e11cb7d404 - 3e43e51b3c3b - 8479d9a67998 tool_panel_section_id: rad_seq diff --git a/usegalaxy.cz/rna_analysis.yml.lock b/usegalaxy.cz/rna_analysis.yml.lock index d4c1117..be6ef71 100644 --- a/usegalaxy.cz/rna_analysis.yml.lock +++ b/usegalaxy.cz/rna_analysis.yml.lock @@ -14,6 +14,7 @@ tools: revisions: - 71ce24befa24 - a896b8b7d264 + - afaa62bfdf28 - d421497303c0 - dba18bf7528f - ee72e302b6a3 @@ -25,6 +26,7 @@ tools: - 3741c4204eb5 - 87c11c05d238 - ce5d418183c5 + - e4eb8c4a82f6 - fce88d02de6c tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis @@ -32,6 +34,7 @@ tools: owner: iuc revisions: - 2c3d294dbe42 + - 9980289f89ab - d6b5fc94062c tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis @@ -46,6 +49,7 @@ tools: owner: iuc revisions: - 4f9c4e6566e5 + - a2b65af988d2 - c971db6f0fe5 - f71c54748ff2 tool_panel_section_id: rna_analysis @@ -56,6 +60,7 @@ tools: - 298d81e5e138 - b3f292d9f35d - d3377a16d881 + - ecb3e2432f4f - f3fefb6d8254 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis @@ -64,6 +69,7 @@ tools: revisions: - 3a083c78896e - d1f7fa5bb3cb + - fbba3e57c350 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: filter_transcripts_via_tracking @@ -83,6 +89,7 @@ tools: revisions: - 04adc9db1581 - 86285ddd4512 + - b6fd78078bb3 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: cufflinks @@ -90,6 +97,7 @@ tools: revisions: - 6926716bbfb5 - d080005cffe1 + - df40fefcc676 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: cuffdiff @@ -97,11 +105,13 @@ tools: revisions: - 43221aef70e2 - a85acc5199c7 + - cd969b7f207c tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: cuffcompare owner: devteam revisions: + - 0366d167d364 - ad5d061fbdf2 - f648e5180e40 tool_panel_section_id: rna_analysis @@ -119,6 +129,7 @@ tools: - 37d067694d40 - 38b6d12edc68 - 5dbff3a5845a + - ce3c9c1ac7ca - f9d49f5cb597 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis @@ -151,17 +162,20 @@ tools: owner: iuc revisions: - 05996586c8b3 + - bd21dd94c221 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: chira_merge owner: iuc revisions: + - 672029ec4a0b - 9930af9d17f8 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: chira_map owner: iuc revisions: + - 4ac1b4148127 - 7925dd016f53 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis @@ -169,11 +183,13 @@ tools: owner: iuc revisions: - 38d2b1f38992 + - a2bba8b2db55 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: chira_extract owner: iuc revisions: + - 44c50b0714d9 - 73d2b7a8d94b tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis @@ -196,12 +212,14 @@ tools: owner: rnateam revisions: - 0d94a529f925 + - 19f1ede7e3e4 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: cuffnorm owner: devteam revisions: - 28b94cfbfdb9 + - 7e58536d5cc6 - 9a854107dbb2 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis @@ -215,6 +233,7 @@ tools: owner: lparsons revisions: - 4418229c501e + - 8332c892bd72 - 8f6836089479 - 916cb26bd9d3 - c5a9d57d7eb1 @@ -224,6 +243,7 @@ tools: - name: salmon owner: bgruening revisions: + - 0080a42718be - 15cd64d7c58b - 29e12b90949d - 30d90b851d3c @@ -240,6 +260,7 @@ tools: - 8fe98f7094de - 9a882d108833 - b060944b3989 + - eaeb33f475e9 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: stringtie @@ -249,6 +270,7 @@ tools: - a356a3e21032 - ae618321f34a - cbf488da3b2c + - ff365aa70906 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: trinity_align_and_estimate_abundance @@ -284,12 +306,14 @@ tools: owner: iuc revisions: - 2b80a2596064 + - 5a69f2ff055e - 5f589c91566e tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: slamdunk owner: iuc revisions: + - 0459d98045c5 - 5a26589d95ad tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis @@ -305,12 +329,14 @@ tools: revisions: - 0bcc35b10569 - 1906cb429215 + - 6d005443b243 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: masigpro owner: iuc revisions: - 402e0b9cfd87 + - 53fa0bb662be - 83f8b5ceff43 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis @@ -383,6 +409,7 @@ tools: revisions: - 119b069fc845 - d6f5fa4ee473 + - df0082f25f47 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: dexseq @@ -390,6 +417,7 @@ tools: revisions: - 2872c633f07e - 74ec758e63a4 + - 98fd01004439 - b47c006d90c5 - df929f257179 tool_panel_section_id: rna_analysis @@ -404,6 +432,7 @@ tools: - name: egsea owner: iuc revisions: + - 183afb27bcf1 - fba1660fb717 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis @@ -582,6 +611,7 @@ tools: - 2e6190c29c54 - 473382134e56 - 5968573462fa + - 5bc075714a8b - f242ee103277 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis @@ -594,6 +624,7 @@ tools: - name: pizzly owner: iuc revisions: + - 59bdee6f554c - 91ef4a171202 - f7556cfa4047 tool_panel_section_id: rna_analysis @@ -670,6 +701,7 @@ tools: revisions: - 679d93c99757 - 93148c05136f + - a55f47f580e9 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis - name: viennarna_rnaeval @@ -911,6 +943,7 @@ tools: - name: genomic_super_signature owner: iuc revisions: + - 274b52d706f1 - d0cbe6cc1f04 tool_panel_section_id: rna_analysis tool_panel_section_label: RNA Analysis diff --git a/usegalaxy.cz/sam_bam.yml.lock b/usegalaxy.cz/sam_bam.yml.lock index 95814f3..4f4b36c 100644 --- a/usegalaxy.cz/sam_bam.yml.lock +++ b/usegalaxy.cz/sam_bam.yml.lock @@ -293,6 +293,7 @@ tools: owner: bgruening revisions: - 63f6f42d112b + - 8906468c0a64 tool_panel_section_id: sam_bam tool_panel_section_label: SAM/BAM - name: bamtools_split_paired diff --git a/usegalaxy.cz/send_data.yml.lock b/usegalaxy.cz/send_data.yml.lock index 5c0c0ed..1e0e049 100644 --- a/usegalaxy.cz/send_data.yml.lock +++ b/usegalaxy.cz/send_data.yml.lock @@ -6,6 +6,7 @@ tools: owner: iuc revisions: - 16364014b8a9 + - 1e1ce62b4869 - '440074098911' - 5cb6146337d8 - 7ca4ed416391 diff --git a/usegalaxy.cz/single_cell.yml.lock b/usegalaxy.cz/single_cell.yml.lock index 0178fc2..8c451b2 100644 --- a/usegalaxy.cz/single_cell.yml.lock +++ b/usegalaxy.cz/single_cell.yml.lock @@ -87,6 +87,7 @@ tools: owner: iuc revisions: - 10d928447114 + - 2ee6ff4d70fc - a9caad671439 tool_panel_section_id: single_cell tool_panel_section_label: Single-cell @@ -111,6 +112,7 @@ tools: - '528052085629' - a8b6292cdffc - b0fe3e482cb7 + - b3aea985597c - e32b215b7c04 - f2000bc73102 tool_panel_section_id: single_cell @@ -205,11 +207,13 @@ tools: owner: iuc revisions: - 99f912d5af9f + - e3a9a42b4605 tool_panel_section_id: single_cell tool_panel_section_label: Single-cell - name: scater_plot_pca owner: iuc revisions: + - 7022861faab0 - c99ba278dfa9 tool_panel_section_id: single_cell tool_panel_section_label: Single-cell @@ -222,6 +226,7 @@ tools: - name: scater_plot_dist_scatter owner: iuc revisions: + - 63dc52ce8c73 - ef4c80837bc5 tool_panel_section_id: single_cell tool_panel_section_label: Single-cell @@ -235,12 +240,14 @@ tools: owner: iuc revisions: - 652923ce664f + - ede400b28a58 tool_panel_section_id: single_cell tool_panel_section_label: Single-cell - name: scater_create_qcmetric_ready_sce owner: iuc revisions: - 8f333f90d8d6 + - fad352ff02ad tool_panel_section_id: single_cell tool_panel_section_label: Single-cell - name: raceid_inspectclusters @@ -250,6 +257,7 @@ tools: - 25a519a368a4 - 53d889b0a2c9 - c7ddb719554d + - debffa24f4b1 - f3eb2291da05 tool_panel_section_id: single_cell tool_panel_section_label: Single-cell @@ -257,6 +265,7 @@ tools: owner: iuc revisions: - 4d69676e6af2 + - 81aacdf3a656 - 8b917923f7d4 - b83fbc90161e - b9712ed9c027 @@ -270,6 +279,7 @@ tools: - 14ac9a11465e - 1c727d097441 - 49776718ae90 + - 713f9dd0f77e - d2755d6016ca tool_panel_section_id: single_cell tool_panel_section_label: Single-cell @@ -279,6 +289,7 @@ tools: - 2581f709c447 - 2af7c5086a96 - 2bfd55b87af3 + - 51e0736263e4 - 8efd06e9899d - fe9bf1aa669e tool_panel_section_id: single_cell @@ -290,6 +301,7 @@ tools: - 6e90c8adf84f - 9606d2385547 - a6821f856a1e + - fb7906aa5791 tool_panel_section_id: single_cell tool_panel_section_label: Single-cell - name: music_deconvolution @@ -354,6 +366,7 @@ tools: owner: iuc revisions: - d1b34ac42b8f + - e188e2c2598b - fb61eb03e313 tool_panel_section_id: single_cell tool_panel_section_label: Single-cell diff --git a/usegalaxy.cz/statistics.yml.lock b/usegalaxy.cz/statistics.yml.lock index 47c7286..2531460 100644 --- a/usegalaxy.cz/statistics.yml.lock +++ b/usegalaxy.cz/statistics.yml.lock @@ -114,6 +114,7 @@ tools: - 4efac966af2a - 602b5fb7ef09 - 648b81bca7c5 + - a1478b43a349 - a84e6ffd3735 - b7e93c1deb3f - d0ed8e976b79 @@ -141,6 +142,7 @@ tools: - name: graphembed owner: iuc revisions: + - 4e25e18415c0 - f28678233baf tool_panel_section_id: statistics tool_panel_section_label: Statistics @@ -175,17 +177,20 @@ tools: owner: iuc revisions: - 1bc9150ed125 + - 7db40b986b82 tool_panel_section_id: statistics tool_panel_section_label: Statistics - name: iwtomics_testandplot owner: iuc revisions: + - 6993163b4133 - 94965e369be4 tool_panel_section_id: statistics tool_panel_section_label: Statistics - name: iwtomics_loadandplot owner: iuc revisions: + - 34abac8eb3e7 - ce633cc8f5f9 tool_panel_section_id: statistics tool_panel_section_label: Statistics diff --git a/usegalaxy.cz/text_manipulation.yml.lock b/usegalaxy.cz/text_manipulation.yml.lock index db7d72c..b88fcf5 100644 --- a/usegalaxy.cz/text_manipulation.yml.lock +++ b/usegalaxy.cz/text_manipulation.yml.lock @@ -47,6 +47,7 @@ tools: - 9bc5cdefb090 - 9cd341095afd - aff5135563c6 + - b6236eb1a50b tool_panel_section_id: text_manipulation tool_panel_section_label: Text Manipulation - name: diff @@ -55,6 +56,7 @@ tools: - 02dfbbf869d8 - 10ef1bf99074 - 156d0908e232 + - 2dfd91f7b71d - 95a9dc82fc9a - be2d899bf34a tool_panel_section_id: text_manipulation @@ -93,6 +95,7 @@ tools: revisions: - 3bf5661c0280 - 56a8da1f2243 + - 6fb9abd4a64a - c656214aa052 - cd36d6e45e29 tool_panel_section_id: text_manipulation @@ -130,6 +133,7 @@ tools: owner: iuc revisions: - 3a6b78c39dca + - a8e9456dbead - cf34c344508d - cf4397560712 tool_panel_section_id: text_manipulation @@ -182,6 +186,7 @@ tools: - 1ee282794de3 - 654b3a274ed5 - 6b865dde1baa + - dbd2e239117c tool_panel_section_id: text_manipulation tool_panel_section_label: Text Manipulation - name: gff3_rebase @@ -289,6 +294,7 @@ tools: - 521bcbb5aa16 - 5c9cb302c242 - a3c79d2b1041 + - ce13bea1e11e - e74df764bfd9 - f5f86d7506d5 tool_panel_section_id: text_manipulation diff --git a/usegalaxy.cz/variant_calling.yml.lock b/usegalaxy.cz/variant_calling.yml.lock index 0907bf5..cf5ca96 100644 --- a/usegalaxy.cz/variant_calling.yml.lock +++ b/usegalaxy.cz/variant_calling.yml.lock @@ -6,6 +6,7 @@ tools: owner: devteam revisions: - aa8e8c96ca06 + - f5dd85e03c55 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: artic_minion @@ -48,6 +49,7 @@ tools: - name: cnvkit_antitarget owner: iuc revisions: + - 3c5ff748fdbc - b52fa1df3bc4 - f1b016247826 tool_panel_section_id: variant_calling @@ -56,6 +58,7 @@ tools: owner: iuc revisions: - 9f18bcf53f92 + - b5ab7688208b - ee93e2047dc1 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling @@ -167,6 +170,7 @@ tools: - 09d6806c609e - 0abc5513f795 - 2b3e65a4252f + - 2d6319686ea3 - 2e497a770bca - 5fab4f81391d - b04635ebfab0 @@ -197,6 +201,7 @@ tools: revisions: - 14af3b671440 - 4805fe3d8fda + - 72d76a5adbc9 - b11e8e9c23bf - e1461b5c52a0 tool_panel_section_id: variant_calling @@ -223,6 +228,7 @@ tools: owner: iuc revisions: - 93c4b04a0769 + - c7a721c21e01 - ceff2f6a5368 - dcd4681273f7 tool_panel_section_id: variant_calling @@ -237,6 +243,7 @@ tools: - name: control_freec owner: iuc revisions: + - 8e25f5d7a4fc - f923c54a17ee tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling @@ -263,6 +270,7 @@ tools: owner: iuc revisions: - 2a3a00c1fa0a + - b68ff9393fb6 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: lofreq_viterbi @@ -271,17 +279,20 @@ tools: - 3330ebe7c0c7 - aa35ee7f3ab2 - af7e416d8176 + - facfecd498e4 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: lofreq_alnqual owner: iuc revisions: + - 4e7fc9795034 - 791f73caa0c8 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: lofreq_indelqual owner: iuc revisions: + - 07cd2a0e530d - 354b534eeab7 - 4165b712b569 - 426d707dfc47 @@ -333,6 +344,7 @@ tools: owner: iuc revisions: - 08d22d220254 + - c3b0d50d1b53 - d220115f882b tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling @@ -348,30 +360,35 @@ tools: - name: vcfselectsamples owner: devteam revisions: + - 019656c5fb3d - 2ba3b87f904f tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfannotategenotypes owner: devteam revisions: + - 3eacf0e5afd4 - 84959112d9a6 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfdistance owner: devteam revisions: + - 359c94784f55 - 5822b40f3037 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfflatten owner: devteam revisions: + - 4ab2e9409403 - f285aa6bdcfb tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfcommonsamples owner: devteam revisions: + - 4e363d204ff6 - f1852ecef841 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling @@ -379,35 +396,41 @@ tools: owner: devteam revisions: - 01e0321aca98 + - 064b9acd58c5 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfvcfintersect owner: devteam revisions: - 166c4f50525f + - 2116f9563368 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfbreakcreatemulti owner: devteam revisions: - 9fd5d91eb91b + - cc80a3aca4bf tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfallelicprimitives owner: devteam revisions: - 57a16b310fe8 + - ae033778a61c tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfgeno2haplo owner: devteam revisions: + - 1f387bdec36f - a3dea556218d tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcffilter owner: devteam revisions: + - 1ce46fc2168a - 4bdc111b2470 - fa24bf0598f4 tool_panel_section_id: variant_calling @@ -416,35 +439,41 @@ tools: owner: devteam revisions: - 11f62f071125 + - 5f945f9e1207 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfgenotypes owner: devteam revisions: - a60ae8af21a1 + - fb57e663bc4a tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfbedintersect owner: devteam revisions: - aea8e90ad788 + - e4778e5a5d43 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfrandomsample owner: devteam revisions: + - 14cf0e143a0b - 6257ee3b50d3 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfhethom owner: devteam revisions: + - 71f5bce189c5 - 8254e0fe7358 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfsort owner: devteam revisions: + - 851e0d4ed101 - dd44c3f416c3 - ee60203e68d9 tool_panel_section_id: variant_calling @@ -453,11 +482,13 @@ tools: owner: devteam revisions: - 17096387c0e6 + - e87a701d9452 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfcombine owner: devteam revisions: + - 0c3033cc02fe - 1f0ba67cc85a tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling @@ -465,18 +496,21 @@ tools: owner: devteam revisions: - 29f9b782727e + - da4f35bd095d tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcf2tsv owner: devteam revisions: - 285060661b45 + - b6980d022240 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: vcfaddinfo owner: devteam revisions: - 6ea73d6151ec + - 6f12c4ce6c8c tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: bcftools_call @@ -569,6 +603,7 @@ tools: - 1e1291983bc7 - 85dc96ebc770 - a5937157062f + - ae2f044f7b1c - c752293b798c - e698621cca1f - ef2c525bd8cd @@ -624,6 +659,7 @@ tools: - name: cnvkit_autobin owner: iuc revisions: + - 1b46c875128f - 33ceac9ae827 - 94e1d19c8190 tool_panel_section_id: variant_calling @@ -634,18 +670,21 @@ tools: - 4653aeb60243 - 80dc747a394d - d9741a570506 + - e806f882a413 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: cnvkit_call owner: iuc revisions: - 0a5e2fc51dfb + - 58328c8e37df - 79b2add55e02 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: cnvkit_coverage owner: iuc revisions: + - 5170090eaf4e - 5602cbf1153b - 9410f163f2e7 tool_panel_section_id: variant_calling @@ -653,6 +692,7 @@ tools: - name: cnvkit_diagram owner: iuc revisions: + - 1924416359eb - 697c61206f5f - 8f642a41cd94 tool_panel_section_id: variant_calling @@ -660,6 +700,7 @@ tools: - name: cnvkit_fix owner: iuc revisions: + - 294990cb10cd - aa3fa1c29ccf - dc0fb5f07231 tool_panel_section_id: variant_calling @@ -667,6 +708,7 @@ tools: - name: cnvkit_heatmap owner: iuc revisions: + - 11d0d7c2269f - 41a25bd96ec6 - d8c45afa221c tool_panel_section_id: variant_calling @@ -676,6 +718,7 @@ tools: revisions: - 0c3db8ec44b0 - 403825b9349a + - 73abbf6495be tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: cnvkit_scatter @@ -683,11 +726,13 @@ tools: revisions: - 3323a7867128 - 64960243c9e1 + - 694411aa16e4 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: cnvkit_segment owner: iuc revisions: + - bb1c663a9c46 - bdd0e8e05933 - c4a22d0fdba5 tool_panel_section_id: variant_calling @@ -697,11 +742,13 @@ tools: revisions: - 876630eb0680 - 8e75b2d61784 + - db3588a9051f tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: snpsift_genesets owner: iuc revisions: + - 333c2f24e479 - 60d04e5f3dcf - d12a810c837e tool_panel_section_id: variant_calling @@ -710,6 +757,7 @@ tools: owner: iuc revisions: - 4e21e4f2bc48 + - 90cf787c022c - cff5bd9c728d tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling @@ -950,6 +998,7 @@ tools: - name: vcf2maf owner: iuc revisions: + - 2920e6524c5d - e8510e04a86a tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling @@ -968,6 +1017,7 @@ tools: - 78df8fc2b3ab - 98c227b9be71 - a40dd4fd3096 + - c8eefc6bf631 - d9965e143053 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling @@ -995,6 +1045,7 @@ tools: - name: cnvkit_breaks owner: iuc revisions: + - b77e9ce643a6 - d889cf77ec0d - ef9a50eb20ce tool_panel_section_id: variant_calling @@ -1004,11 +1055,13 @@ tools: revisions: - 2b53415d4f3c - aafd56f1b0f7 + - bb5dc90e2ef1 tool_panel_section_id: variant_calling tool_panel_section_label: Variant Calling - name: cnvkit_segmetrics owner: iuc revisions: + - 0233886f275d - 046b04fc7284 - d9cb65e1f756 tool_panel_section_id: variant_calling @@ -1016,6 +1069,7 @@ tools: - name: cnvkit_sex owner: iuc revisions: + - 27b32e5dd963 - 3316bd294f6f - 9f300faccb88 tool_panel_section_id: variant_calling diff --git a/usegalaxy.cz/vcf_bcf.yml.lock b/usegalaxy.cz/vcf_bcf.yml.lock index d1561ab..f44f906 100644 --- a/usegalaxy.cz/vcf_bcf.yml.lock +++ b/usegalaxy.cz/vcf_bcf.yml.lock @@ -5,6 +5,7 @@ tools: - name: vcffilter owner: devteam revisions: + - 1ce46fc2168a - 4bdc111b2470 - eae7c08ebb6f - fa24bf0598f4 @@ -14,6 +15,7 @@ tools: owner: devteam revisions: - 6ea73d6151ec + - 6f12c4ce6c8c - afc0ba768690 tool_panel_section_id: vcf_bcf tool_panel_section_label: VCF/BCF @@ -21,6 +23,7 @@ tools: owner: devteam revisions: - 285060661b45 + - b6980d022240 - e92b3c0f9224 tool_panel_section_id: vcf_bcf tool_panel_section_label: VCF/BCF @@ -29,11 +32,13 @@ tools: revisions: - 29f9b782727e - d2406f98a782 + - da4f35bd095d tool_panel_section_id: vcf_bcf tool_panel_section_label: VCF/BCF - name: vcfcombine owner: devteam revisions: + - 0c3033cc02fe - 1f0ba67cc85a - 53edb91ed051 tool_panel_section_id: vcf_bcf @@ -42,6 +47,7 @@ tools: owner: devteam revisions: - 5b7120c66efc + - 851e0d4ed101 - dd44c3f416c3 - ee60203e68d9 tool_panel_section_id: vcf_bcf @@ -49,6 +55,7 @@ tools: - name: vcfhethom owner: devteam revisions: + - 71f5bce189c5 - 8254e0fe7358 - b07ef36cf7e6 tool_panel_section_id: vcf_bcf @@ -57,6 +64,7 @@ tools: owner: devteam revisions: - 12b570dd0bc5 + - 14cf0e143a0b - 6257ee3b50d3 tool_panel_section_id: vcf_bcf tool_panel_section_label: VCF/BCF @@ -65,6 +73,7 @@ tools: revisions: - 9edfe5145ba8 - aea8e90ad788 + - e4778e5a5d43 tool_panel_section_id: vcf_bcf tool_panel_section_label: VCF/BCF - name: vcfgenotypes @@ -72,18 +81,21 @@ tools: revisions: - a60ae8af21a1 - f5653ed90dfd + - fb57e663bc4a tool_panel_section_id: vcf_bcf tool_panel_section_label: VCF/BCF - name: vcffixup owner: devteam revisions: - 11f62f071125 + - 5f945f9e1207 - fc5a64fdd5b2 tool_panel_section_id: vcf_bcf tool_panel_section_label: VCF/BCF - name: vcfgeno2haplo owner: devteam revisions: + - 1f387bdec36f - a3dea556218d - b890055e07bd tool_panel_section_id: vcf_bcf @@ -93,6 +105,7 @@ tools: revisions: - 57a16b310fe8 - a8a4f94aa321 + - ae033778a61c tool_panel_section_id: vcf_bcf tool_panel_section_label: VCF/BCF - name: vcfbreakcreatemulti @@ -100,12 +113,14 @@ tools: revisions: - 690b1d846263 - 9fd5d91eb91b + - cc80a3aca4bf tool_panel_section_id: vcf_bcf tool_panel_section_label: VCF/BCF - name: vcfvcfintersect owner: devteam revisions: - 166c4f50525f + - 2116f9563368 - 6f6bf10618d7 tool_panel_section_id: vcf_bcf tool_panel_section_label: VCF/BCF @@ -125,6 +140,7 @@ tools: owner: devteam revisions: - 01e0321aca98 + - 064b9acd58c5 - 6faa2c4c71d2 tool_panel_section_id: vcf_bcf tool_panel_section_label: VCF/BCF @@ -132,12 +148,14 @@ tools: owner: devteam revisions: - 254f285dbaaa + - 4e363d204ff6 - f1852ecef841 tool_panel_section_id: vcf_bcf tool_panel_section_label: VCF/BCF - name: vcfflatten owner: devteam revisions: + - 4ab2e9409403 - b24e368ae7b1 - f285aa6bdcfb tool_panel_section_id: vcf_bcf @@ -145,6 +163,7 @@ tools: - name: vcfannotategenotypes owner: devteam revisions: + - 3eacf0e5afd4 - 70bc6ced57f7 - 84959112d9a6 tool_panel_section_id: vcf_bcf @@ -152,6 +171,7 @@ tools: - name: vcfselectsamples owner: devteam revisions: + - 019656c5fb3d - 2ba3b87f904f - 958b6484a7f1 tool_panel_section_id: vcf_bcf @@ -179,6 +199,7 @@ tools: - name: vcfdistance owner: devteam revisions: + - 359c94784f55 - 5822b40f3037 - 6e0fc18309f4 tool_panel_section_id: vcf_bcf diff --git a/usegalaxy.cz/virology.yml.lock b/usegalaxy.cz/virology.yml.lock index 97d5913..4a6ccb9 100644 --- a/usegalaxy.cz/virology.yml.lock +++ b/usegalaxy.cz/virology.yml.lock @@ -8,6 +8,7 @@ tools: - 0893a1dbb807 - 6606a8c97889 - 7bd020da0ce5 + - 8b20bc80ebf4 - c092052ed673 - f0cc9cf99407 tool_panel_section_id: virology @@ -43,6 +44,7 @@ tools: - 194e3ceee923 - 1ef68546d37f - 5e5dfc9e71e2 + - 924aef5ed7ae - ed28dd32141c tool_panel_section_id: virology tool_panel_section_label: Virology @@ -59,6 +61,7 @@ tools: owner: iuc revisions: - 1563b58905f4 + - b0e8176203e1 - fa7086274673 tool_panel_section_id: virology tool_panel_section_label: Virology @@ -77,6 +80,7 @@ tools: - 08c2d81e7942 - 11c062caec10 - 1f467ed22412 + - 55c855236438 - 5b9314d73110 - a57b20e33cff - eccec0876e54 @@ -86,6 +90,7 @@ tools: owner: iuc revisions: - 1980b199b14a + - 2b618ed582da - 945b31d82638 - c0a0e79d7196 - e7a2086a0f03 @@ -98,6 +103,7 @@ tools: revisions: - 0830f7a1377e - 2d1bfff73837 + - 7e7e80991682 - a09398bc953a - cd5d77d118f2 - dda5772507b2 @@ -112,6 +118,7 @@ tools: - 1f89eeba299a - 3d9253661554 - 640c0b8cc8bf + - aa55042c6e5e - d0632d8bac6a tool_panel_section_id: virology tool_panel_section_label: Virology