Install IWC tools for usegalaxy.cz

usegalaxy.cz/annotation.yml

@@ -258,3 +258,19 @@ tools:
   owner: iuc
 - name: funannotate_sort
   owner: iuc
+- name: staramr
+  owner: iuc
+- name: amrfinderplus
+  owner: iuc
+- name: prodigal
+  owner: iuc
+- name: argnorm
+  owner: iuc
+- name: mmseqs2_taxonomy_assignment
+  owner: iuc
+- name: compleasm
+  owner: iuc
+- name: ncbi_fcs_adaptor
+  owner: richard-burhans
+- name: omark
+  owner: iuc

usegalaxy.cz/annotation.yml.lock

@@ -33,6 +33,7 @@ tools:
 - name: busco
   owner: iuc
   revisions:
+  - 2babe6d5c561
   - 4e70d88adf2f
   - 94170eee0ad8
   - bb935709506a
@@ -905,3 +906,52 @@ tools:
   - d77fdcca400e
   tool_panel_section_id: annotation
   tool_panel_section_label: Annotation
+- name: staramr
+  owner: iuc
+  revisions:
+  - 6d5c8a6ceea0
+  - eaa563bd535a
+  tool_panel_section_id: annotation
+  tool_panel_section_label: Annotation
+- name: amrfinderplus
+  owner: iuc
+  revisions:
+  - 7844dbe4f8e2
+  tool_panel_section_id: annotation
+  tool_panel_section_label: Annotation
+- name: prodigal
+  owner: iuc
+  revisions:
+  - 91791b6ecd38
+  tool_panel_section_id: annotation
+  tool_panel_section_label: Annotation
+- name: argnorm
+  owner: iuc
+  revisions:
+  - d8e95a03321a
+  tool_panel_section_id: annotation
+  tool_panel_section_label: Annotation
+- name: mmseqs2_taxonomy_assignment
+  owner: iuc
+  revisions:
+  - 876d26806584
+  tool_panel_section_id: annotation
+  tool_panel_section_label: Annotation
+- name: compleasm
+  owner: iuc
+  revisions:
+  - fc7334661489
+  tool_panel_section_id: annotation
+  tool_panel_section_label: Annotation
+- name: ncbi_fcs_adaptor
+  owner: richard-burhans
+  revisions:
+  - d55ad8533d58
+  tool_panel_section_id: annotation
+  tool_panel_section_label: Annotation
+- name: omark
+  owner: iuc
+  revisions:
+  - 0291e0e81551
+  tool_panel_section_id: annotation
+  tool_panel_section_label: Annotation

usegalaxy.cz/assembly.yml

@@ -160,3 +160,15 @@ tools:
   owner: bgruening
 - name: nextdenovo
   owner: bgruening
+- name: meryl_count_kmers
+  owner: iuc
+- name: meryl_groups_kmers
+  owner: iuc
+- name: meryl_histogram_kmers
+  owner: iuc
+- name: pretext_graph
+  owner: iuc
+- name: pairtools_parse
+  owner: iuc
+- name: pairtools_dedup
+  owner: iuc

usegalaxy.cz/assembly.yml.lock

@@ -230,6 +230,7 @@ tools:
   - aa39b19ca11e
   - cd06929b224b
   - d865b62f501c
+  - e100a765370e
   tool_panel_section_id: assembly
   tool_panel_section_label: Assembly
 - name: minia
@@ -615,3 +616,43 @@ tools:
   - 733eab97b979
   tool_panel_section_id: assembly
   tool_panel_section_label: Assembly
+- name: meryl_count_kmers
+  owner: iuc
+  revisions:
+  - bb6774c6aeaf
+  - e893b7452150
+  tool_panel_section_id: assembly
+  tool_panel_section_label: Assembly
+- name: meryl_groups_kmers
+  owner: iuc
+  revisions:
+  - c4758f3bf36e
+  - cc8029eca6e9
+  tool_panel_section_id: assembly
+  tool_panel_section_label: Assembly
+- name: meryl_histogram_kmers
+  owner: iuc
+  revisions:
+  - 9a0227fa7521
+  - fa86bf923473
+  tool_panel_section_id: assembly
+  tool_panel_section_label: Assembly
+- name: pretext_graph
+  owner: iuc
+  revisions:
+  - 36ce83a739f2
+  - 408ece2e4647
+  tool_panel_section_id: assembly
+  tool_panel_section_label: Assembly
+- name: pairtools_parse
+  owner: iuc
+  revisions:
+  - a5876cca7b05
+  tool_panel_section_id: assembly
+  tool_panel_section_label: Assembly
+- name: pairtools_dedup
+  owner: iuc
+  revisions:
+  - 3d1d241ceff2
+  tool_panel_section_id: assembly
+  tool_panel_section_label: Assembly

usegalaxy.cz/bed.yml.lock

@@ -9,6 +9,7 @@ tools:
   - 0a5c785ac6db
   - 2892111d91f8
   - 589e7e57fd6d
+  - 64e2edfe7a2c
   - 87ee588b3d45
   - a1a923cd89e8
   - a68aa6c1204a

usegalaxy.cz/chemicaltoolbox.yml

@@ -246,3 +246,9 @@ tools:
   owner: chemteam
 - name: gmx_rmsf
   owner: chemteam
+- name: qcxms_neutral_run
+  owner: recetox
+- name: qcxms_production_run
+  owner: recetox
+- name: qcxms_getres
+  owner: recetox

usegalaxy.cz/chemicaltoolbox.yml.lock

@@ -6,6 +6,7 @@ tools:
   owner: chemteam
   revisions:
   - 095ad4d096d1
+  - a0c154146234
   tool_panel_section_id: chemicaltoolbox
   tool_panel_section_label: ChemicalToolBox
 - name: chembl
@@ -17,6 +18,7 @@ tools:
 - name: ambertools_antechamber
   owner: chemteam
   revisions:
+  - 4fff93efc0f9
   - 8a839e6a1e3e
   tool_panel_section_id: chemicaltoolbox
   tool_panel_section_label: ChemicalToolBox
@@ -96,6 +98,7 @@ tools:
   owner: chemteam
   revisions:
   - 070e3ecc3fda
+  - 1d4dd4f908d4
   tool_panel_section_id: chemicaltoolbox
   tool_panel_section_label: ChemicalToolBox
 - name: openbabel_subsearch
@@ -257,6 +260,7 @@ tools:
   owner: bgruening
   revisions:
   - 67ee76f0e497
+  - bbbf5fb356dd
   tool_panel_section_id: chemicaltoolbox
   tool_panel_section_label: ChemicalToolBox
 - name: sdf_to_tab
@@ -361,6 +365,7 @@ tools:
   owner: bgruening
   revisions:
   - 0993ac4f4a23
+  - a1c53f0533b0
   tool_panel_section_id: chemicaltoolbox
   tool_panel_section_label: ChemicalToolBox
 - name: qed
@@ -542,6 +547,7 @@ tools:
 - name: gmx_merge_topology_files
   owner: chemteam
   revisions:
+  - 9389cd867cf2
   - bc31d02be922
   tool_panel_section_id: chemicaltoolbox
   tool_panel_section_label: ChemicalToolBox
@@ -814,3 +820,21 @@ tools:
   - f261fded9631
   tool_panel_section_id: chemicaltoolbox
   tool_panel_section_label: ChemicalToolBox
+- name: qcxms_neutral_run
+  owner: recetox
+  revisions:
+  - 475bbef634d4
+  tool_panel_section_id: chemicaltoolbox
+  tool_panel_section_label: ChemicalToolBox
+- name: qcxms_production_run
+  owner: recetox
+  revisions:
+  - cbe34f060712
+  tool_panel_section_id: chemicaltoolbox
+  tool_panel_section_label: ChemicalToolBox
+- name: qcxms_getres
+  owner: recetox
+  revisions:
+  - 0109f244d25a
+  tool_panel_section_id: chemicaltoolbox
+  tool_panel_section_label: ChemicalToolBox

usegalaxy.cz/collection_operations.yml.lock

@@ -27,12 +27,14 @@ tools:
   - 2ddc36385d7a
   - 6cbe2f30c2d7
   - 750c1684d47c
+  - baabc30154cd
   tool_panel_section_id: collection_operations
   tool_panel_section_label: Collection Operations
 - name: collapse_collections
   owner: nml
   revisions:
   - 49bd84e136c7
+  - 830961c48e42
   - 90981f86000f
   tool_panel_section_id: collection_operations
   tool_panel_section_label: Collection Operations

usegalaxy.cz/convert_formats.yml

@@ -80,3 +80,7 @@ tools:
   owner: iuc
 - name: xmlstarlet
   owner: ecology
+- name: tooldistillator
+  owner: iuc
+- name: tooldistillator_summarize
+  owner: iuc

usegalaxy.cz/convert_formats.yml.lock

@@ -293,3 +293,17 @@ tools:
   - 4a9ac1df3278
   tool_panel_section_id: convert_formats
   tool_panel_section_label: Convert Formats
+- name: tooldistillator
+  owner: iuc
+  revisions:
+  - 9f1c8dc0253e
+  - c6b5c2975e51
+  tool_panel_section_id: convert_formats
+  tool_panel_section_label: Convert Formats
+- name: tooldistillator_summarize
+  owner: iuc
+  revisions:
+  - 3d0223265277
+  - f4f71128f097
+  tool_panel_section_id: convert_formats
+  tool_panel_section_label: Convert Formats

usegalaxy.cz/epigenetics.yml.lock

@@ -114,18 +114,21 @@ tools:
   revisions:
   - 3df254580b06
   - c3dc51297bf8
+  - ebd2a52eb245
   tool_panel_section_id: epigenetics
   tool_panel_section_label: Epigenetics
 - name: cooler_csort_tabix
   owner: lldelisle
   revisions:
   - 026950a1853c
+  - 8c3cba559c99
   - d56db0e1555d
   tool_panel_section_id: epigenetics
   tool_panel_section_label: Epigenetics
 - name: cooler_cload_tabix
   owner: lldelisle
   revisions:
+  - 0641e1c892c6
   - 168e86e96afa
   - 3ff6eeca667e
   tool_panel_section_id: epigenetics
@@ -134,6 +137,7 @@ tools:
   owner: lldelisle
   revisions:
   - 8f71aaf6e59d
+  - 8f9fe0667b89
   - b387933e4d3d
   tool_panel_section_id: epigenetics
   tool_panel_section_label: Epigenetics

usegalaxy.cz/fasta_fastq.yml

@@ -168,3 +168,11 @@ tools:
   owner: iuc
 - name: prinseq
   owner: iuc
+- name: seqkit_translate
+  owner: iuc
+- name: ncbi_fcs_gx
+  owner: iuc
+- name: rdeval
+  owner: richard-burhans
+- name: mgnify_seqprep
+  owner: bgruening

usegalaxy.cz/fasta_fastq.yml.lock

@@ -6,6 +6,7 @@ tools:
   owner: lparsons
   revisions:
   - 135b80fb1ac2
+  - 5eb7e84243f2
   - 80766b36005d
   - 8c0175e03cee
   - 8e264b67a8c0
@@ -259,6 +260,9 @@ tools:
   - 281054a26e41
   - 480ddbd12a03
   - 65b93b623c77
+  - a626e8c0e1ba
+  - c59d48774d03
+  - dbf9c561ef29
   - e25816738ef3
   - f875da9d433c
   tool_panel_section_id: fasta_fastq
@@ -272,6 +276,7 @@ tools:
 - name: fasta_to_tabular
   owner: devteam
   revisions:
+  - 7e801ab2b70e
   - e7ed3c310b74
   tool_panel_section_id: fasta_fastq
   tool_panel_section_label: FASTA/FASTQ
@@ -643,3 +648,29 @@ tools:
   - 654b3a274ed5
   tool_panel_section_id: fasta_fastq
   tool_panel_section_label: FASTA/FASTQ
+- name: seqkit_translate
+  owner: iuc
+  revisions:
+  - 0e0b003c711f
+  - c669e8550c46
+  tool_panel_section_id: fasta_fastq
+  tool_panel_section_label: FASTA/FASTQ
+- name: ncbi_fcs_gx
+  owner: iuc
+  revisions:
+  - 5fe428757fab
+  tool_panel_section_id: fasta_fastq
+  tool_panel_section_label: FASTA/FASTQ
+- name: rdeval
+  owner: richard-burhans
+  revisions:
+  - 37d67c252fed
+  - aef1eea2058c
+  tool_panel_section_id: fasta_fastq
+  tool_panel_section_label: FASTA/FASTQ
+- name: mgnify_seqprep
+  owner: bgruening
+  revisions:
+  - 76ea9d4604bc
+  tool_panel_section_id: uncategorized
+  tool_panel_section_label: Uncategorized

usegalaxy.cz/get_data.yml

@@ -60,3 +60,5 @@ tools:
   owner: iuc
 - name: ega_download_streamer
   owner: yhoogstrate
+- name: fastq_dl
+  owner: iuc