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fetch all tools bot - step filter
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github-actions committed May 5, 2024
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117 changes: 102 additions & 15 deletions results/microgalaxy/index.html
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<td>1.1</td>
<td>(0/1)</td>
<td>(0/1)</td>
<td>(0/1)</td>
<td>(1/1)</td>
<td>(0/1)</td>
</tr>
<tr>
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<td>2.1.7</td>
<td>(2/6)</td>
<td>(2/6)</td>
<td>(1/6)</td>
<td>(6/6)</td>
<td>(0/6)</td>
</tr>
<tr>
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<td>2.9</td>
<td>bracken</td>
<td>2.9</td>
<td>(0/1)</td>
<td>(1/1)</td>
<td>(1/1)</td>
<td>(1/1)</td>
<td>(1/1)</td>
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<td>https://github.com/galaxyproject/tools-iuc/tree/main/tools/clair3</td>
<td>0.1.12</td>
<td>clair3</td>
<td>1.0.7</td>
<td>1.0.8</td>
<td>(0/1)</td>
<td>(0/1)</td>
<td>(1/1)</td>
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<td>(1/1)</td>
<td>(1/1)</td>
</tr>
<tr>
<td></td>
<td>fastk</td>
<td></td>
<td></td>
<td>fastk_fastk</td>
<td>FastK: A K-mer counter (for HQ assembly data sets)</td>
<td></td>
<td></td>
<td></td>
<td></td>
<td></td>
<td></td>
<td></td>
<td>To update</td>
<td>https://github.com/thegenemyers/FASTK</td>
<td>Assembly</td>
<td>fastk</td>
<td>iuc</td>
<td>https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastk</td>
<td>https://github.com/galaxyproject/tools-iuc/tree/main/tools/fastk</td>
<td>1.0.0</td>
<td>fastk</td>
<td>1.0</td>
<td>(0/1)</td>
<td>(0/1)</td>
<td>(0/1)</td>
<td>(0/1)</td>
</tr>
<tr>
<td></td>
<td>fastp</td>
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<td>2.4.0</td>
<td>(0/1)</td>
<td>(1/1)</td>
<td>(0/1)</td>
<td>(1/1)</td>
<td>(0/1)</td>
</tr>
<tr>
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<td>https://github.com/galaxyproject/tools-iuc/tree/main/tools/hyphy</td>
<td>2.5.47</td>
<td>hyphy</td>
<td>2.5.60</td>
<td>2.5.61</td>
<td>(17/17)</td>
<td>(2/17)</td>
<td>(17/17)</td>
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<td>iuc</td>
<td>https://github.com/galaxyproject/tools-iuc/tree/master/tools/mitos</td>
<td>https://github.com/galaxyproject/tools-iuc/tree/main/tools/mitos</td>
<td>1.1.6</td>
<td>1.1.7</td>
<td>mitos</td>
<td>2.1.8</td>
<td>2.1.9</td>
<td>(1/2)</td>
<td>(1/2)</td>
<td>(2/2)</td>
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<td></td>
<td></td>
<td></td>
<td>To update</td>
<td>Up-to-date</td>
<td>https://pairtools.readthedocs.io</td>
<td>Sequence Analysis</td>
<td>pairtools</td>
<td>iuc</td>
<td>https://github.com/open2c/pairtools</td>
<td>https://github.com/galaxyproject/tools-iuc/tree/main/tools/pairtools</td>
<td>1.0.3</td>
<td>1.1.0</td>
<td>pairtools</td>
<td>1.1.0</td>
<td>(0/5)</td>
<td>(5/5)</td>
<td>(0/5)</td>
<td>(5/5)</td>
<td>(0/5)</td>
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<td>Produces an unbiased subsample of your reads</td>
<td></td>
<td></td>
<td>Up-to-date</td>
<td>To update</td>
<td>https://github.com/mbhall88/rasusa</td>
<td>Sequence Analysis</td>
<td>rasusa</td>
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<td>https://github.com/galaxyproject/tools-iuc/tree/main/tools/rasusa</td>
<td>0.8.0</td>
<td>rasusa</td>
<td>0.8.0</td>
<td>2.0.0</td>
<td>(0/1)</td>
<td>(0/1)</td>
<td>(1/1)</td>
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<td>spades_biosyntheticspades, spades_coronaspades, spades_metaplasmidspades, metaspades, spades_metaviralspades, spades_plasmidspades, rnaspades, spades_rnaviralspades, spades</td>
<td>SPAdes is an assembly toolkit containing various assembly pipelines. It implements the following 4 stages: assembly graph construction, k-bimer adjustment, construction of paired assembly graph and contig construction.</td>
<td>spades</td>
<td>rnaviralspades, biosyntheticspades, rnaspades, spades, plasmidspades, metaspades, coronaspades, metaplasmidspades, metaviralspades</td>
<td>metaplasmidspades, plasmidspades, metaviralspades, rnaspades, rnaviralspades, spades, coronaspades, metaspades, biosyntheticspades</td>
<td></td>
<td>SPAdes</td>
<td>St. Petersburg genome assembler – is intended for both standard isolates and single-cell MDA bacteria assemblies. SPAdes 3.9 works with Illumina or IonTorrent reads and is capable of providing hybrid assemblies using PacBio, Oxford Nanopore and Sanger reads. Additional contigs can be provided and can be used as long reads.</td>
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<td>(1/1)</td>
<td>(0/1)</td>
</tr>
<tr>
<td></td>
<td>tooldistillator</td>
<td></td>
<td></td>
<td>tooldistillator, tooldistillator_summarize</td>
<td>ToolDistillator extract and aggregate information from different tool outputs to JSON parsable files</td>
<td>tooldistillator</td>
<td>tooldistillator</td>
<td></td>
<td>ToolDistillator</td>
<td>ToolDistillator is a tool to extract information from output files of specific tools, expose it as JSON files, and aggregate over several tools.It can produce both a single file to each tool or a summarized file from a set of reports.</td>
<td>Data handling, Parsing</td>
<td>Microbiology, Bioinformatics, Sequence analysis</td>
<td>Up-to-date</td>
<td>https://gitlab.com/ifb-elixirfr/abromics/tooldistillator</td>
<td>Sequence Analysis</td>
<td>tooldistillator</td>
<td>iuc</td>
<td>https://github.com/galaxyproject/tools-iuc/tree/master/tools/tooldistillator</td>
<td>https://github.com/galaxyproject/tools-iuc/tree/main/tools/tooldistillator</td>
<td>0.8.4.1</td>
<td>tooldistillator</td>
<td>0.8.4.1</td>
<td>(0/2)</td>
<td>(0/2)</td>
<td>(0/2)</td>
<td>(0/2)</td>
</tr>
<tr>
<td></td>
<td>transit</td>
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<td>https://github.com/galaxyproject/tools-iuc/tree/main/tools/vsearch</td>
<td>2.8.3</td>
<td>vsearch</td>
<td>2.27.1</td>
<td>2.28.1</td>
<td>(8/8)</td>
<td>(8/8)</td>
<td>(8/8)</td>
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<td>(0/1)</td>
<td>(0/1)</td>
</tr>
<tr>
<td></td>
<td>zoo_project_ogc_api_processes</td>
<td></td>
<td></td>
<td></td>
<td>This tool is a wrapper for OGC API Processes coming from the Zoo Project and was created using the OGC-API-Process2Galaxy tool (https://github.com/AquaINFRA/OGC-API-Process2Galaxy). Check the README in the repository for more information.</td>
<td></td>
<td></td>
<td></td>
<td></td>
<td></td>
<td></td>
<td></td>
<td>To update</td>
<td>https://github.com/AquaINFRA/galaxy</td>
<td>Ecology</td>
<td></td>
<td>ecology</td>
<td>https://github.com/galaxyecology/tools-ecology/tree/master/tools/ogc_api_processes_wrapper</td>
<td>https://github.com/galaxyecology/tools-ecology/tree/master/tools/zoo_project_ogc_api_processes</td>
<td></td>
<td>r-base</td>
<td></td>
<td>(0/1)</td>
<td>(0/1)</td>
<td>(0/1)</td>
<td>(0/1)</td>
</tr>
<tr>
<td></td>
<td>blast2go</td>
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