diff --git a/.github/workflows/cron_update.yml b/.github/workflows/cron_update.yml index 48429a9..0283cde 100644 --- a/.github/workflows/cron_update.yml +++ b/.github/workflows/cron_update.yml @@ -14,7 +14,7 @@ jobs: runs-on: ubuntu-latest strategy: matrix: - instance: [usegalaxy.cz, galaxy-umsa.grid.cesnet.cz] + instance: [usegalaxy.cz, galaxy-umsa.grid.cesnet.cz, repeatexplorer-elixir.cerit-sc.cz] python-version: [3.11] steps: - uses: actions/checkout@v4 diff --git a/.github/workflows/dispatch_lint.yml b/.github/workflows/dispatch_lint.yml index ccca7ee..df3a047 100644 --- a/.github/workflows/dispatch_lint.yml +++ b/.github/workflows/dispatch_lint.yml @@ -11,6 +11,7 @@ on: - galaxy-qa1.galaxy.cloud.e-infra.cz - usegalaxy.cz - galaxy-umsa.grid.cesnet.cz + - repeatexplorer-elixir.cerit-sc.cz jobs: build: diff --git a/.github/workflows/dispatch_update.yml b/.github/workflows/dispatch_update.yml index 6aa58c6..492e320 100644 --- a/.github/workflows/dispatch_update.yml +++ b/.github/workflows/dispatch_update.yml @@ -15,6 +15,7 @@ on: - galaxy-qa1.galaxy.cloud.e-infra.cz - usegalaxy.cz - galaxy-umsa.grid.cesnet.cz + - repeatexplorer-elixir.cerit-sc.cz permissions: contents: write diff --git a/.github/workflows/fix.yml b/.github/workflows/fix.yml index d1032b7..c55db0d 100644 --- a/.github/workflows/fix.yml +++ b/.github/workflows/fix.yml @@ -35,6 +35,8 @@ jobs: make INSTANCE=usegalaxy.cz fix make INSTANCE=galaxy-umsa.grid.cesnet.cz lint make INSTANCE=galaxy-umsa.grid.cesnet.cz fix + make INSTANCE=repeatexplorer-elixir.cerit-sc.cz lint + make INSTANCE=repeatexplorer-elixir.cerit-sc.cz fix - name: Create Pull Request uses: peter-evans/create-pull-request@v7 with: diff --git a/.github/workflows/lint.yml b/.github/workflows/lint.yml index 111febe..4036835 100644 --- a/.github/workflows/lint.yml +++ b/.github/workflows/lint.yml @@ -32,3 +32,4 @@ jobs: make INSTANCE=galaxy-qa1.galaxy.cloud.e-infra.cz lint make INSTANCE=usegalaxy.cz lint make INSTANCE=galaxy-umsa.grid.cesnet.cz lint + make INSTANCE=repeatexplorer-elixir.cerit-sc.cz lint diff --git a/Makefile b/Makefile index 2aee74b..4b3609a 100644 --- a/Makefile +++ b/Makefile @@ -25,6 +25,6 @@ update-all: ## Run the update script for all repos find ./$(INSTANCE) -name '*.yml' | grep '^\./[^/]*/' | xargs -n 1 -P $(NPROC) python scripts/update_tool.py install: ## Run the Ephemeris command to install all repos and revisions that are missing from a given INSTANCE - find ./$(INSTANCE) -name '*.yml' | grep '^\./[^/]*/' | xargs -n 1 -P 1 -I {} shed-tools install --toolsfile {} --galaxy $(INSTANCE) --api_key $(GALAXY_API_KEY) --skip_install_resolver_dependencies + find ./$(INSTANCE) -name '*.yml.lock' | grep '^\./[^/]*/' | xargs -n 1 -P 1 -I {} shed-tools install --toolsfile {} --galaxy $(INSTANCE) --api_key $(GALAXY_API_KEY) --skip_install_resolver_dependencies .PHONY: fix lint help update-owner update-all install diff --git a/repeatexplorer-elixir.cerit-sc.cz/assembly_annotation_tools.yml b/repeatexplorer-elixir.cerit-sc.cz/assembly_annotation_tools.yml new file mode 100644 index 0000000..62016fe --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/assembly_annotation_tools.yml @@ -0,0 +1,4 @@ +tool_panel_section_label: Assembly annotation tools +tools: +- name: repeat_annotation_pipeline3 + owner: petr-novak diff --git a/repeatexplorer-elixir.cerit-sc.cz/assembly_annotation_tools.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/assembly_annotation_tools.yml.lock new file mode 100644 index 0000000..4571a5e --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/assembly_annotation_tools.yml.lock @@ -0,0 +1,11 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: repeat_annotation_pipeline3 + owner: petr-novak + revisions: + - 5366d5ea04bc + - 755a4d643184 + tool_panel_section_id: assembly_annotation_tools + tool_panel_section_label: Assembly annotation tools diff --git a/repeatexplorer-elixir.cerit-sc.cz/bed.yml b/repeatexplorer-elixir.cerit-sc.cz/bed.yml new file mode 100644 index 0000000..8a8058e --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/bed.yml @@ -0,0 +1,6 @@ +tool_panel_section_label: BED +tools: +- name: gffread + owner: devteam +- name: bedtools + owner: iuc diff --git a/repeatexplorer-elixir.cerit-sc.cz/bed.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/bed.yml.lock new file mode 100644 index 0000000..cc0c156 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/bed.yml.lock @@ -0,0 +1,17 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: gffread + owner: devteam + revisions: + - 3e436657dcd0 + tool_panel_section_id: bed + tool_panel_section_label: BED +- name: bedtools + owner: iuc + revisions: + - 2892111d91f8 + - a1a923cd89e8 + tool_panel_section_id: bed + tool_panel_section_label: BED diff --git a/repeatexplorer-elixir.cerit-sc.cz/dante.yml b/repeatexplorer-elixir.cerit-sc.cz/dante.yml new file mode 100644 index 0000000..1de29ed --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/dante.yml @@ -0,0 +1,4 @@ +tool_panel_section_label: DANTE +tools: +- name: dante + owner: petr-novak diff --git a/repeatexplorer-elixir.cerit-sc.cz/dante.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/dante.yml.lock new file mode 100644 index 0000000..02e061d --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/dante.yml.lock @@ -0,0 +1,14 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: dante + owner: petr-novak + revisions: + - 5210db15a5fa + - 726b8447eb09 + - 8f2bd3cae2de + - a9d7ebf988f9 + - f0663cdbae66 + tool_panel_section_id: dante + tool_panel_section_label: DANTE diff --git a/repeatexplorer-elixir.cerit-sc.cz/dante_ltr.yml b/repeatexplorer-elixir.cerit-sc.cz/dante_ltr.yml new file mode 100644 index 0000000..65ab988 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/dante_ltr.yml @@ -0,0 +1,4 @@ +tool_panel_section_label: DANTE_LTR +tools: +- name: dante_ltr + owner: petr-novak diff --git a/repeatexplorer-elixir.cerit-sc.cz/dante_ltr.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/dante_ltr.yml.lock new file mode 100644 index 0000000..e8f933d --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/dante_ltr.yml.lock @@ -0,0 +1,14 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: dante_ltr + owner: petr-novak + revisions: + - 08b5e23859ed + - 27e5f58763f2 + - 8224e3d7b03a + - d5508ce50c49 + - e61f06df42b9 + tool_panel_section_id: dante_ltr + tool_panel_section_label: DANTE_LTR diff --git a/repeatexplorer-elixir.cerit-sc.cz/dante_tir.yml b/repeatexplorer-elixir.cerit-sc.cz/dante_tir.yml new file mode 100644 index 0000000..19c6e68 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/dante_tir.yml @@ -0,0 +1,4 @@ +tool_panel_section_label: DANTE_TIR +tools: +- name: dante_tir + owner: petr-novak diff --git a/repeatexplorer-elixir.cerit-sc.cz/dante_tir.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/dante_tir.yml.lock new file mode 100644 index 0000000..f7597fe --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/dante_tir.yml.lock @@ -0,0 +1,10 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: dante_tir + owner: petr-novak + revisions: + - ce4d06c72092 + tool_panel_section_id: dante_tir + tool_panel_section_label: DANTE_TIR diff --git a/repeatexplorer-elixir.cerit-sc.cz/fasta_fastq_manipulation.yml b/repeatexplorer-elixir.cerit-sc.cz/fasta_fastq_manipulation.yml new file mode 100644 index 0000000..90260d4 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/fasta_fastq_manipulation.yml @@ -0,0 +1,38 @@ +tool_panel_section_label: FASTA/FASTQ manipulation +tools: +- name: fasta_compute_length + owner: devteam +- name: fasta_to_tabular + owner: devteam +- name: fasta_formatter + owner: devteam +- name: fastx_reverse_complement + owner: devteam +- name: fastx_trimmer + owner: devteam +- name: fastx_renamer + owner: devteam +- name: tabular_to_fasta + owner: devteam +- name: tabular_to_fastq + owner: devteam +- name: fastq_to_tabular + owner: devteam +- name: fastqtofasta + owner: devteam +- name: fastq_paired_end_deinterlacer + owner: devteam +- name: fastq_paired_end_interlacer + owner: devteam +- name: fasta_filter_by_length + owner: devteam +- name: ucsc_fasplit + owner: iuc +- name: trimmomatic + owner: pjbriggs +- name: trim_galore + owner: bgruening +- name: seqkit_stats + owner: iuc +- name: seqtk + owner: iuc diff --git a/repeatexplorer-elixir.cerit-sc.cz/fasta_fastq_manipulation.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/fasta_fastq_manipulation.yml.lock new file mode 100644 index 0000000..d975448 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/fasta_fastq_manipulation.yml.lock @@ -0,0 +1,127 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: fasta_compute_length + owner: devteam + revisions: + - 5cbde03c1103 + - 7d37cfda8e00 + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: fasta_to_tabular + owner: devteam + revisions: + - e7ed3c310b74 + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: fasta_formatter + owner: devteam + revisions: + - 516b97a23d7e + - e773f1eb16cf + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: fastx_reverse_complement + owner: devteam + revisions: + - 177f0621c266 + - 7566b751e769 + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: fastx_trimmer + owner: devteam + revisions: + - 1ea2ae5afb28 + - 73194cdd4f57 + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: fastx_renamer + owner: devteam + revisions: + - 0ffae348abae + - f984bb114520 + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: tabular_to_fasta + owner: devteam + revisions: + - 0a7799698fe5 + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: tabular_to_fastq + owner: devteam + revisions: + - 2dcfbbf9071a + - 78fb18899c99 + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: fastq_to_tabular + owner: devteam + revisions: + - 43807a65369f + - 4b347702c4aa + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: fastqtofasta + owner: devteam + revisions: + - 297962e79f39 + - 4a3e93647a4e + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: fastq_paired_end_deinterlacer + owner: devteam + revisions: + - c48cf4699be7 + - f3936d0632cb + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: fastq_paired_end_interlacer + owner: devteam + revisions: + - 2ccb8dcabddc + - acb5090e281f + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: fasta_filter_by_length + owner: devteam + revisions: + - 8cacfcf96a52 + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: ucsc_fasplit + owner: iuc + revisions: + - 1add611a6018 + - bf04bd405d5b + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: trimmomatic + owner: pjbriggs + revisions: + - 32f1f56bd970 + - b9aaed85cbd1 + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: trim_galore + owner: bgruening + revisions: + - b94789823aad + - cd7e644cae1d + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: seqkit_stats + owner: iuc + revisions: + - 24107542edff + - 54a954ee64d4 + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation +- name: seqtk + owner: iuc + revisions: + - 4b494533146a + - 8511b6d85fc7 + tool_panel_section_id: fasta_fastq_manipulation + tool_panel_section_label: FASTA/FASTQ manipulation diff --git a/repeatexplorer-elixir.cerit-sc.cz/genomic_file_utilities.yml b/repeatexplorer-elixir.cerit-sc.cz/genomic_file_utilities.yml new file mode 100644 index 0000000..c94eb5a --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/genomic_file_utilities.yml @@ -0,0 +1,4 @@ +tool_panel_section_label: Genomic file utilities +tools: +- name: various_galaxy_tools + owner: petr-novak diff --git a/repeatexplorer-elixir.cerit-sc.cz/genomic_file_utilities.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/genomic_file_utilities.yml.lock new file mode 100644 index 0000000..ff81cb7 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/genomic_file_utilities.yml.lock @@ -0,0 +1,10 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: various_galaxy_tools + owner: petr-novak + revisions: + - 1069776f7ae2 + tool_panel_section_id: genomic_file_utilities + tool_panel_section_label: Genomic file utilities diff --git a/repeatexplorer-elixir.cerit-sc.cz/get_data.yml b/repeatexplorer-elixir.cerit-sc.cz/get_data.yml new file mode 100644 index 0000000..0780992 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/get_data.yml @@ -0,0 +1,4 @@ +tool_panel_section_label: Get Data +tools: +- name: ncbi_datasets + owner: iuc diff --git a/repeatexplorer-elixir.cerit-sc.cz/get_data.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/get_data.yml.lock new file mode 100644 index 0000000..984667a --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/get_data.yml.lock @@ -0,0 +1,11 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: ncbi_datasets + owner: iuc + revisions: + - 198c75abbf55 + - bc18e25d4204 + tool_panel_section_id: get_data + tool_panel_section_label: Get Data diff --git a/repeatexplorer-elixir.cerit-sc.cz/jbrowse.yml b/repeatexplorer-elixir.cerit-sc.cz/jbrowse.yml new file mode 100644 index 0000000..417b44c --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/jbrowse.yml @@ -0,0 +1,4 @@ +tool_panel_section_label: Jbrowse +tools: +- name: jbrowse + owner: iuc diff --git a/repeatexplorer-elixir.cerit-sc.cz/jbrowse.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/jbrowse.yml.lock new file mode 100644 index 0000000..85e837f --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/jbrowse.yml.lock @@ -0,0 +1,10 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: jbrowse + owner: iuc + revisions: + - a6e57ff585c0 + tool_panel_section_id: jbrowse + tool_panel_section_label: Jbrowse diff --git a/repeatexplorer-elixir.cerit-sc.cz/ngs__qc_and_manipulation.yml b/repeatexplorer-elixir.cerit-sc.cz/ngs__qc_and_manipulation.yml new file mode 100644 index 0000000..c6a5879 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/ngs__qc_and_manipulation.yml @@ -0,0 +1,26 @@ +tool_panel_section_label: 'NGS: QC and manipulation' +tools: +- name: fastqc + owner: devteam +- name: fastq_groomer + owner: devteam +- name: fastq_paired_end_splitter + owner: devteam +- name: fastq_stats + owner: devteam +- name: fastx_barcode_splitter + owner: devteam +- name: fastx_artifacts_filter + owner: devteam +- name: fastx_nucleotides_distribution + owner: devteam +- name: fastx_quality_statistics + owner: devteam +- name: fastq_quality_boxplot + owner: devteam +- name: fastq_quality_converter + owner: devteam +- name: fastq_quality_filter + owner: devteam +- name: multiqc + owner: iuc diff --git a/repeatexplorer-elixir.cerit-sc.cz/ngs__qc_and_manipulation.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/ngs__qc_and_manipulation.yml.lock new file mode 100644 index 0000000..60fcfb1 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/ngs__qc_and_manipulation.yml.lock @@ -0,0 +1,88 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: fastqc + owner: devteam + revisions: + - 2c64fded1286 + - 5ec9f6bceaee + tool_panel_section_id: ngs__qc_and_manipulation + tool_panel_section_label: 'NGS: QC and manipulation' +- name: fastq_groomer + owner: devteam + revisions: + - 10d4df6a9d94 + - 47e5dbc3e790 + tool_panel_section_id: ngs__qc_and_manipulation + tool_panel_section_label: 'NGS: QC and manipulation' +- name: fastq_paired_end_splitter + owner: devteam + revisions: + - 7fafac615aa1 + - e39cc71d3ed6 + tool_panel_section_id: ngs__qc_and_manipulation + tool_panel_section_label: 'NGS: QC and manipulation' +- name: fastq_stats + owner: devteam + revisions: + - f0e7deab6518 + - f86c27295151 + tool_panel_section_id: ngs__qc_and_manipulation + tool_panel_section_label: 'NGS: QC and manipulation' +- name: fastx_barcode_splitter + owner: devteam + revisions: + - 0b7ec11b3c7c + - 229caeddb2df + tool_panel_section_id: ngs__qc_and_manipulation + tool_panel_section_label: 'NGS: QC and manipulation' +- name: fastx_artifacts_filter + owner: devteam + revisions: + - 34edfa69c149 + - 529bccd5e4a1 + tool_panel_section_id: ngs__qc_and_manipulation + tool_panel_section_label: 'NGS: QC and manipulation' +- name: fastx_nucleotides_distribution + owner: devteam + revisions: + - 751878fa37e5 + - b6b54ba71bd8 + tool_panel_section_id: ngs__qc_and_manipulation + tool_panel_section_label: 'NGS: QC and manipulation' +- name: fastx_quality_statistics + owner: devteam + revisions: + - 48c943a0290a + - cc0fd298cc17 + tool_panel_section_id: ngs__qc_and_manipulation + tool_panel_section_label: 'NGS: QC and manipulation' +- name: fastq_quality_boxplot + owner: devteam + revisions: + - 47df89f900a4 + - 867ab348287d + tool_panel_section_id: ngs__qc_and_manipulation + tool_panel_section_label: 'NGS: QC and manipulation' +- name: fastq_quality_converter + owner: devteam + revisions: + - 045f0e1043f7 + - 86713dc416ec + tool_panel_section_id: ngs__qc_and_manipulation + tool_panel_section_label: 'NGS: QC and manipulation' +- name: fastq_quality_filter + owner: devteam + revisions: + - 64e9a6afdd0c + - b1e332a385f1 + tool_panel_section_id: ngs__qc_and_manipulation + tool_panel_section_label: 'NGS: QC and manipulation' +- name: multiqc + owner: iuc + revisions: + - 26ee5e11ecbe + - abfd8a6544d7 + tool_panel_section_id: ngs__qc_and_manipulation + tool_panel_section_label: 'NGS: QC and manipulation' diff --git a/repeatexplorer-elixir.cerit-sc.cz/repeatexplorer.yml b/repeatexplorer-elixir.cerit-sc.cz/repeatexplorer.yml new file mode 100644 index 0000000..3691531 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/repeatexplorer.yml @@ -0,0 +1,4 @@ +tool_panel_section_label: RepeatExplorer +tools: +- name: repeatexplorer2_testing + owner: petr-novak diff --git a/repeatexplorer-elixir.cerit-sc.cz/repeatexplorer.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/repeatexplorer.yml.lock new file mode 100644 index 0000000..0d76ed8 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/repeatexplorer.yml.lock @@ -0,0 +1,15 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: repeatexplorer2_testing + owner: petr-novak + revisions: + - 20ef42e81eeb + - 3d0ba5734776 + - 4308d3e572ee + - 5cca2c9aa4ad + - 792914356c37 + - a27646c27090 + tool_panel_section_id: repeatexplorer + tool_panel_section_label: RepeatExplorer diff --git a/repeatexplorer-elixir.cerit-sc.cz/repeatexplorer_utilities.yml b/repeatexplorer-elixir.cerit-sc.cz/repeatexplorer_utilities.yml new file mode 100644 index 0000000..78fe0fc --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/repeatexplorer_utilities.yml @@ -0,0 +1,6 @@ +tool_panel_section_label: RepeatExplorer utilities +tools: +- name: re_utils + owner: petr-novak +- name: long_reads_sampling + owner: petr-novak diff --git a/repeatexplorer-elixir.cerit-sc.cz/repeatexplorer_utilities.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/repeatexplorer_utilities.yml.lock new file mode 100644 index 0000000..e438346 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/repeatexplorer_utilities.yml.lock @@ -0,0 +1,16 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: re_utils + owner: petr-novak + revisions: + - 91996b991991 + tool_panel_section_id: repeatexplorer_utilities + tool_panel_section_label: RepeatExplorer utilities +- name: long_reads_sampling + owner: petr-novak + revisions: + - 060fc04af21c + tool_panel_section_id: repeatexplorer_utilities + tool_panel_section_label: RepeatExplorer utilities diff --git a/repeatexplorer-elixir.cerit-sc.cz/text_manipulation.yml b/repeatexplorer-elixir.cerit-sc.cz/text_manipulation.yml new file mode 100644 index 0000000..f3db33f --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/text_manipulation.yml @@ -0,0 +1,4 @@ +tool_panel_section_label: Text manipulation +tools: +- name: text_processing + owner: bgruening diff --git a/repeatexplorer-elixir.cerit-sc.cz/text_manipulation.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/text_manipulation.yml.lock new file mode 100644 index 0000000..0d87cce --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/text_manipulation.yml.lock @@ -0,0 +1,11 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: text_processing + owner: bgruening + revisions: + - ab83aa685821 + - d698c222f354 + tool_panel_section_id: text_manipulation + tool_panel_section_label: Text manipulation diff --git a/repeatexplorer-elixir.cerit-sc.cz/tidecluster.yml b/repeatexplorer-elixir.cerit-sc.cz/tidecluster.yml new file mode 100644 index 0000000..ee081a1 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/tidecluster.yml @@ -0,0 +1,4 @@ +tool_panel_section_label: TideCluster +tools: +- name: tidecluster + owner: petr-novak diff --git a/repeatexplorer-elixir.cerit-sc.cz/tidecluster.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/tidecluster.yml.lock new file mode 100644 index 0000000..1a713a9 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/tidecluster.yml.lock @@ -0,0 +1,13 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: tidecluster + owner: petr-novak + revisions: + - 30a8a954dd93 + - 440796be7576 + - 971dbc97e607 + - a0f57cfa1bb7 + tool_panel_section_id: tidecluster + tool_panel_section_label: TideCluster diff --git a/repeatexplorer-elixir.cerit-sc.cz/visualisation.yml b/repeatexplorer-elixir.cerit-sc.cz/visualisation.yml new file mode 100644 index 0000000..7f77f2c --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/visualisation.yml @@ -0,0 +1,16 @@ +tool_panel_section_label: Visualisation +tools: +- name: krona_text + owner: petr-novak +- name: histogram + owner: devteam +- name: ggplot2_point + owner: iuc +- name: ggplot2_histogram + owner: iuc +- name: ggplot2_violin + owner: iuc +- name: ggplot2_pca + owner: iuc +- name: ggplot2_heatmap + owner: iuc diff --git a/repeatexplorer-elixir.cerit-sc.cz/visualisation.yml.lock b/repeatexplorer-elixir.cerit-sc.cz/visualisation.yml.lock new file mode 100644 index 0000000..d1f3366 --- /dev/null +++ b/repeatexplorer-elixir.cerit-sc.cz/visualisation.yml.lock @@ -0,0 +1,52 @@ +install_repository_dependencies: false +install_resolver_dependencies: false +install_tool_dependencies: false +tools: +- name: krona_text + owner: petr-novak + revisions: + - 04021cfd5170 + tool_panel_section_id: visualisation + tool_panel_section_label: Visualisation +- name: histogram + owner: devteam + revisions: + - 6f134426c2b0 + - d0b9dd19e919 + tool_panel_section_id: visualisation + tool_panel_section_label: Visualisation +- name: ggplot2_point + owner: iuc + revisions: + - 3b12bf9b4b87 + - f87634b12749 + tool_panel_section_id: visualisation + tool_panel_section_label: Visualisation +- name: ggplot2_histogram + owner: iuc + revisions: + - 6b9816a913de + - b0d96516e6a5 + tool_panel_section_id: visualisation + tool_panel_section_label: Visualisation +- name: ggplot2_violin + owner: iuc + revisions: + - 0e7290688b50 + - 63d211052ffb + tool_panel_section_id: visualisation + tool_panel_section_label: Visualisation +- name: ggplot2_pca + owner: iuc + revisions: + - 1df3b30325dd + - b1268b7544d3 + tool_panel_section_id: visualisation + tool_panel_section_label: Visualisation +- name: ggplot2_heatmap + owner: iuc + revisions: + - 10515715c940 + - 15cebddc6dba + tool_panel_section_id: visualisation + tool_panel_section_label: Visualisation