Mercurial > repos > iuc > ncbi_datasets
comparison macros.xml @ 17:da8260eba74b draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ncbi_datasets commit 1c7abf3293422fb432b5acd2ef178e7536d65f0b
| author | iuc |
|---|---|
| date | Fri, 21 Feb 2025 18:44:07 +0000 |
| parents | a6a475ed58cb |
| children | d951c5b0edd1 |
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| 16:a6a475ed58cb | 17:da8260eba74b |
|---|---|
| 1 <macros> | 1 <macros> |
| 2 <token name="@TOOL_VERSION@">16.20.0</token> | 2 <token name="@TOOL_VERSION@">16.41.0</token> |
| 3 <token name="@VERSION_SUFFIX@">0</token> | 3 <token name="@VERSION_SUFFIX@">0</token> |
| 4 <token name="@PROFILE@">23.0</token> | 4 <token name="@PROFILE@">23.0</token> |
| 5 <token name="@LICENSE@">MIT</token> | 5 <token name="@LICENSE@">MIT</token> |
| 6 <token name="@PROFILE_AND_LICENSE@">profile="@PROFILE@" license="@LICENSE@"</token> | 6 <token name="@PROFILE_AND_LICENSE@">profile="@PROFILE@" license="@LICENSE@"</token> |
| 7 <token name="@SETUP_CERTIFICATES@"><![CDATA[ | 7 <token name="@SETUP_CERTIFICATES@"><![CDATA[ |
| 9 [ -f /usr/local/ssl/cacert.pem ] && export SSL_CERT_FILE="/usr/local/ssl/cacert.pem"; | 9 [ -f /usr/local/ssl/cacert.pem ] && export SSL_CERT_FILE="/usr/local/ssl/cacert.pem"; |
| 10 ]]></token> | 10 ]]></token> |
| 11 <xml name="requirements"> | 11 <xml name="requirements"> |
| 12 <requirements> | 12 <requirements> |
| 13 <requirement type="package" version="@TOOL_VERSION@">ncbi-datasets-cli</requirement> | 13 <requirement type="package" version="@TOOL_VERSION@">ncbi-datasets-cli</requirement> |
| 14 <requirement type="package" version="2024.2.2">ca-certificates</requirement> | 14 <requirement type="package" version="2025.1.31">ca-certificates</requirement> |
| 15 <requirement type="package" version="16.02">p7zip</requirement> | 15 <requirement type="package" version="6.0">unzip</requirement> |
| 16 </requirements> | 16 </requirements> |
| 17 </xml> | 17 </xml> |
| 18 <xml name="bio_tools"> | 18 <xml name="bio_tools"> |
| 19 <xrefs> | 19 <xrefs> |
| 20 <xref type="bio.tools">ncbi_datasets</xref> | 20 <xref type="bio.tools">ncbi_datasets</xref> |
| 114 #echo ",".join($file_choices.include) | 114 #echo ",".join($file_choices.include) |
| 115 #else | 115 #else |
| 116 none | 116 none |
| 117 #end if | 117 #end if |
| 118 ]]></token> | 118 ]]></token> |
| 119 | |
| 119 <xml name="tsv_report_columns"> | 120 <xml name="tsv_report_columns"> |
| 120 <param name="report_columns" type="select" multiple="true" optional="false" label="Columns in the report"> | 121 <param name="report_columns" type="select" multiple="true" optional="false" label="Columns in the report"> |
| 121 <option value="accession">Assembly Accession</option> | 122 <option value="accession">Assembly Accession</option> |
| 123 <option value="ani-best-ani-match-ani">ANI Best ANI match ANI</option> | |
| 124 <option value="ani-best-ani-match-assembly">ANI Best ANI match Assembly</option> | |
| 125 <option value="ani-best-ani-match-assembly_coverage">ANI Best ANI match Assembly Coverage</option> | |
| 126 <option value="ani-best-ani-match-category">ANI Best ANI match Type Category</option> | |
| 127 <option value="ani-best-ani-match-organism">ANI Best ANI match Organism</option> | |
| 128 <option value="ani-best-ani-match-type_assembly_coverage">ANI Best ANI match Type Assembly Coverage</option> | |
| 129 <option value="ani-best-match-status">ANI Best match status</option> | |
| 130 <option value="ani-category">ANI Category</option> | |
| 131 <option value="ani-check-status">ANI Check status</option> | |
| 132 <option value="ani-comment">ANI Comment</option> | |
| 133 <option value="ani-submitted-ani-match-ani">ANI Declared ANI match ANI</option> | |
| 134 <option value="ani-submitted-ani-match-assembly">ANI Declared ANI match Assembly</option> | |
| 135 <option value="ani-submitted-ani-match-assembly_coverage">ANI Declared ANI match Assembly Coverage</option> | |
| 136 <option value="ani-submitted-ani-match-category">ANI Declared ANI match Type Category</option> | |
| 137 <option value="ani-submitted-ani-match-organism">ANI Declared ANI match Organism</option> | |
| 138 <option value="ani-submitted-ani-match-type_assembly_coverage">ANI Declared ANI match Type Assembly Coverage</option> | |
| 139 <option value="ani-submitted-organism">ANI Submitted organism</option> | |
| 140 <option value="ani-submitted-species">ANI Submitted species</option> | |
| 122 <option value="annotinfo-busco-complete">Annotation BUSCO Complete</option> | 141 <option value="annotinfo-busco-complete">Annotation BUSCO Complete</option> |
| 123 <option value="annotinfo-busco-duplicated">Annotation BUSCO Duplicated</option> | 142 <option value="annotinfo-busco-duplicated">Annotation BUSCO Duplicated</option> |
| 124 <option value="annotinfo-busco-fragmented">Annotation BUSCO Fragmented</option> | 143 <option value="annotinfo-busco-fragmented">Annotation BUSCO Fragmented</option> |
| 125 <option value="annotinfo-busco-lineage">Annotation BUSCO Lineage</option> | 144 <option value="annotinfo-busco-lineage">Annotation BUSCO Lineage</option> |
| 126 <option value="annotinfo-busco-missing">Annotation BUSCO Missing</option> | 145 <option value="annotinfo-busco-missing">Annotation BUSCO Missing</option> |
| 135 <option value="annotinfo-method">Annotation Method</option> | 154 <option value="annotinfo-method">Annotation Method</option> |
| 136 <option value="annotinfo-name">Annotation Name</option> | 155 <option value="annotinfo-name">Annotation Name</option> |
| 137 <option value="annotinfo-pipeline">Annotation Pipeline</option> | 156 <option value="annotinfo-pipeline">Annotation Pipeline</option> |
| 138 <option value="annotinfo-provider">Annotation Provider</option> | 157 <option value="annotinfo-provider">Annotation Provider</option> |
| 139 <option value="annotinfo-release-date">Annotation Release Date</option> | 158 <option value="annotinfo-release-date">Annotation Release Date</option> |
| 140 <option value="annotinfo-release-version">Annotation Release Version</option> | |
| 141 <option value="annotinfo-report-url">Annotation Report URL</option> | 159 <option value="annotinfo-report-url">Annotation Report URL</option> |
| 142 <option value="annotinfo-software-version">Annotation Software Version</option> | 160 <option value="annotinfo-software-version">Annotation Software Version</option> |
| 143 <option value="annotinfo-status">Annotation Status</option> | 161 <option value="annotinfo-status">Annotation Status</option> |
| 162 <option value="assminfo-assembly-method">Assembly Assembly Method</option> | |
| 144 <option value="assminfo-atypicalis-atypical">Assembly Atypical Is Atypical</option> | 163 <option value="assminfo-atypicalis-atypical">Assembly Atypical Is Atypical</option> |
| 145 <option value="assminfo-atypicalwarnings">Assembly Atypical Warnings</option> | 164 <option value="assminfo-atypicalwarnings">Assembly Atypical Warnings</option> |
| 165 <option value="assminfo-bioproject">Assembly BioProject Accession</option> | |
| 146 <option value="assminfo-bioproject-lineage-accession">Assembly BioProject Lineage Accession</option> | 166 <option value="assminfo-bioproject-lineage-accession">Assembly BioProject Lineage Accession</option> |
| 147 <option value="assminfo-bioproject-lineage-parent-accession">Assembly BioProject Lineage Parent Accession</option> | |
| 148 <option value="assminfo-bioproject-lineage-parent-accessions">Assembly BioProject Lineage Parent Accessions</option> | 167 <option value="assminfo-bioproject-lineage-parent-accessions">Assembly BioProject Lineage Parent Accessions</option> |
| 149 <option value="assminfo-bioproject-lineage-title">Assembly BioProject Lineage Title</option> | 168 <option value="assminfo-bioproject-lineage-title">Assembly BioProject Lineage Title</option> |
| 150 <option value="assminfo-biosample-accession">Assembly BioSample Accession</option> | 169 <option value="assminfo-biosample-accession">Assembly BioSample Accession</option> |
| 170 <option value="assminfo-biosample-age">Assembly BioSample Age</option> | |
| 151 <option value="assminfo-biosample-attribute-name">Assembly BioSample Attribute Name</option> | 171 <option value="assminfo-biosample-attribute-name">Assembly BioSample Attribute Name</option> |
| 152 <option value="assminfo-biosample-attribute-value">Assembly BioSample Attribute Value</option> | 172 <option value="assminfo-biosample-attribute-value">Assembly BioSample Attribute Value</option> |
| 173 <!-- https://github.com/ncbi/datasets/issues/452 --> | |
| 174 <option value="assminfo-biosample-biomaterial-provider-">Assembly BioSample Biomaterial provider</option> | |
| 153 <option value="assminfo-biosample-bioproject-accession">Assembly BioSample BioProject Accession</option> | 175 <option value="assminfo-biosample-bioproject-accession">Assembly BioSample BioProject Accession</option> |
| 154 <option value="assminfo-biosample-bioproject-parent-accession">Assembly BioSample BioProject Parent Accession</option> | |
| 155 <option value="assminfo-biosample-bioproject-parent-accessions">Assembly BioSample BioProject Parent Accessions</option> | 176 <option value="assminfo-biosample-bioproject-parent-accessions">Assembly BioSample BioProject Parent Accessions</option> |
| 156 <option value="assminfo-biosample-bioproject-title">Assembly BioSample BioProject Title</option> | 177 <option value="assminfo-biosample-bioproject-title">Assembly BioSample BioProject Title</option> |
| 178 <option value="assminfo-biosample-breed">Assembly BioSample Breed</option> | |
| 179 <option value="assminfo-biosample-collected-by">Assembly BioSample Collected by</option> | |
| 180 <option value="assminfo-biosample-collection-date">Assembly BioSample Collection date</option> | |
| 181 <option value="assminfo-biosample-cultivar">Assembly BioSample Cultivar</option> | |
| 157 <option value="assminfo-biosample-description-comment">Assembly BioSample Description Comment</option> | 182 <option value="assminfo-biosample-description-comment">Assembly BioSample Description Comment</option> |
| 158 <option value="assminfo-biosample-description-organism-common-name">Assembly BioSample Description Organism Common Name</option> | 183 <option value="assminfo-biosample-description-organism-common-name">Assembly BioSample Description Organism Common Name</option> |
| 159 <option value="assminfo-biosample-description-organism-infraspecific-breed">Assembly BioSample Description Organism Infraspecific Names Breed</option> | 184 <option value="assminfo-biosample-description-organism-infraspecific-breed">Assembly BioSample Description Organism Infraspecific Names Breed</option> |
| 160 <option value="assminfo-biosample-description-organism-infraspecific-cultivar">Assembly BioSample Description Organism Infraspecific Names Cultivar</option> | 185 <option value="assminfo-biosample-description-organism-infraspecific-cultivar">Assembly BioSample Description Organism Infraspecific Names Cultivar</option> |
| 161 <option value="assminfo-biosample-description-organism-infraspecific-ecotype">Assembly BioSample Description Organism Infraspecific Names Ecotype</option> | 186 <option value="assminfo-biosample-description-organism-infraspecific-ecotype">Assembly BioSample Description Organism Infraspecific Names Ecotype</option> |
| 164 <option value="assminfo-biosample-description-organism-infraspecific-strain">Assembly BioSample Description Organism Infraspecific Names Strain</option> | 189 <option value="assminfo-biosample-description-organism-infraspecific-strain">Assembly BioSample Description Organism Infraspecific Names Strain</option> |
| 165 <option value="assminfo-biosample-description-organism-name">Assembly BioSample Description Organism Name</option> | 190 <option value="assminfo-biosample-description-organism-name">Assembly BioSample Description Organism Name</option> |
| 166 <option value="assminfo-biosample-description-organism-pangolin">Assembly BioSample Description Organism Pangolin Classification</option> | 191 <option value="assminfo-biosample-description-organism-pangolin">Assembly BioSample Description Organism Pangolin Classification</option> |
| 167 <option value="assminfo-biosample-description-organism-tax-id">Assembly BioSample Description Organism Taxonomic ID</option> | 192 <option value="assminfo-biosample-description-organism-tax-id">Assembly BioSample Description Organism Taxonomic ID</option> |
| 168 <option value="assminfo-biosample-description-title">Assembly BioSample Description Title</option> | 193 <option value="assminfo-biosample-description-title">Assembly BioSample Description Title</option> |
| 194 <option value="assminfo-biosample-development-stage">Assembly BioSample Development stage</option> | |
| 195 <option value="assminfo-biosample-ecotype">Assembly BioSample Ecotype</option> | |
| 196 <option value="assminfo-biosample-geo-loc-name">Assembly BioSample Geographic location</option> | |
| 197 <option value="assminfo-biosample-host">Assembly BioSample Host</option> | |
| 198 <option value="assminfo-biosample-identified-by">Assembly BioSample Identified by</option> | |
| 169 <option value="assminfo-biosample-ids-db">Assembly BioSample Sample Identifiers Database</option> | 199 <option value="assminfo-biosample-ids-db">Assembly BioSample Sample Identifiers Database</option> |
| 170 <option value="assminfo-biosample-ids-label">Assembly BioSample Sample Identifiers Label</option> | 200 <option value="assminfo-biosample-ids-label">Assembly BioSample Sample Identifiers Label</option> |
| 171 <option value="assminfo-biosample-ids-value">Assembly BioSample Sample Identifiers Value</option> | 201 <option value="assminfo-biosample-ids-value">Assembly BioSample Sample Identifiers Value</option> |
| 202 <option value="assminfo-biosample-ifsac-category">Assembly BioSample IFSAC category</option> | |
| 203 <option value="assminfo-biosample-isolate">Assembly BioSample Isolate</option> | |
| 204 <option value="assminfo-biosample-isolate-name-alias">Assembly BioSample Isolate name alias</option> | |
| 205 <option value="assminfo-biosample-isolation-source">Assembly BioSample Isolation source</option> | |
| 172 <option value="assminfo-biosample-last-updated">Assembly BioSample Last updated</option> | 206 <option value="assminfo-biosample-last-updated">Assembly BioSample Last updated</option> |
| 207 <option value="assminfo-biosample-lat-lon">Assembly BioSample Latitude / Longitude</option> | |
| 173 <option value="assminfo-biosample-models">Assembly BioSample Models</option> | 208 <option value="assminfo-biosample-models">Assembly BioSample Models</option> |
| 174 <option value="assminfo-biosample-owner-contact-lab">Assembly BioSample Owner Contact Lab</option> | 209 <option value="assminfo-biosample-owner-contact-lab">Assembly BioSample Owner Contact Lab</option> |
| 175 <option value="assminfo-biosample-owner-name">Assembly BioSample Owner Name</option> | 210 <option value="assminfo-biosample-owner-name">Assembly BioSample Owner Name</option> |
| 176 <option value="assminfo-biosample-package">Assembly BioSample Package</option> | 211 <option value="assminfo-biosample-package">Assembly BioSample Package</option> |
| 212 <option value="assminfo-biosample-project-name">Assembly BioSample Project name</option> | |
| 177 <option value="assminfo-biosample-publication-date">Assembly BioSample Publication date</option> | 213 <option value="assminfo-biosample-publication-date">Assembly BioSample Publication date</option> |
| 214 <option value="assminfo-biosample-sample-name">Assembly BioSample Sample name</option> | |
| 215 <option value="assminfo-biosample-serotype">Assembly BioSample Serotype</option> | |
| 216 <option value="assminfo-biosample-serovar">Assembly BioSample Serovar</option> | |
| 217 <option value="assminfo-biosample-sex">Assembly BioSample Sex</option> | |
| 218 <option value="assminfo-biosample-source-type">Assembly BioSample Source type</option> | |
| 178 <option value="assminfo-biosample-status-status">Assembly BioSample Status Status</option> | 219 <option value="assminfo-biosample-status-status">Assembly BioSample Status Status</option> |
| 179 <option value="assminfo-biosample-status-when">Assembly BioSample Status When</option> | 220 <option value="assminfo-biosample-status-when">Assembly BioSample Status When</option> |
| 221 <option value="assminfo-biosample-strain">Assembly BioSample Strain</option> | |
| 222 <option value="assminfo-biosample-sub-species">Assembly BioSample Sub-species</option> | |
| 180 <option value="assminfo-biosample-submission-date">Assembly BioSample Submission date</option> | 223 <option value="assminfo-biosample-submission-date">Assembly BioSample Submission date</option> |
| 224 <option value="assminfo-biosample-tissue">Assembly BioSample Tissue</option> | |
| 181 <option value="assminfo-blast-url">Assembly Blast URL</option> | 225 <option value="assminfo-blast-url">Assembly Blast URL</option> |
| 182 <option value="assminfo-description">Assembly Description</option> | 226 <option value="assminfo-description">Assembly Description</option> |
| 227 <option value="assminfo-grouping-method">Assembly Grouping Method</option> | |
| 183 <option value="assminfo-level">Assembly Level</option> | 228 <option value="assminfo-level">Assembly Level</option> |
| 184 <option value="assminfo-linked-assmaccession">Assembly Linked Assembly Accession</option> | 229 <option value="assminfo-linked-assmaccession">Assembly Linked Assembly Accession</option> |
| 185 <option value="assminfo-linked-assmtype">Assembly Linked Assembly Type</option> | 230 <option value="assminfo-linked-assmtype">Assembly Linked Assembly Type</option> |
| 231 <option value="assminfo-long-name">Assembly LongName</option> | |
| 186 <option value="assminfo-name">Assembly Name</option> | 232 <option value="assminfo-name">Assembly Name</option> |
| 187 <option value="assminfo-paired-assmaccession">Assembly Paired Assembly Accession</option> | 233 <option value="assminfo-notes">Assembly Notes</option> |
| 188 <option value="assminfo-paired-assmname">Assembly Paired Assembly Name</option> | 234 <option value="assminfo-paired-assm-accession">Assembly Paired Assembly Accession</option> |
| 189 <option value="assminfo-paired-assmstatus">Assembly Paired Assembly Status</option> | 235 <option value="assminfo-paired-assm-changed">Assembly Paired Assembly Changed</option> |
| 236 <option value="assminfo-paired-assm-manual-diff">Assembly Paired Assembly Manual Diff</option> | |
| 237 <option value="assminfo-paired-assm-name">Assembly Paired Assembly Name</option> | |
| 238 <option value="assminfo-paired-assm-only-genbank">Assembly Paired Assembly Only Genbank</option> | |
| 239 <option value="assminfo-paired-assm-only-refseq">Assembly Paired Assembly Only RefSeq</option> | |
| 240 <option value="assminfo-paired-assm-refseq-genbank-are-different">Assembly Paired Assembly RefSeq GenBank Are Different</option> | |
| 241 <option value="assminfo-paired-assm-status">Assembly Paired Assembly Status</option> | |
| 190 <option value="assminfo-refseq-category">Assembly Refseq Category</option> | 242 <option value="assminfo-refseq-category">Assembly Refseq Category</option> |
| 243 <option value="assminfo-release-date">Assembly Release Date</option> | |
| 191 <option value="assminfo-sequencing-tech">Assembly Sequencing Tech</option> | 244 <option value="assminfo-sequencing-tech">Assembly Sequencing Tech</option> |
| 192 <option value="assminfo-status">Assembly Status</option> | 245 <option value="assminfo-status">Assembly Status</option> |
| 193 <option value="assminfo-submission-date">Assembly Submission Date</option> | |
| 194 <option value="assminfo-submitter">Assembly Submitter</option> | 246 <option value="assminfo-submitter">Assembly Submitter</option> |
| 247 <option value="assminfo-suppression-reason">Assembly Suppression Reason</option> | |
| 195 <option value="assminfo-synonym">Assembly Synonym</option> | 248 <option value="assminfo-synonym">Assembly Synonym</option> |
| 196 <option value="assminfo-type">Assembly Type</option> | 249 <option value="assminfo-type">Assembly Type</option> |
| 197 <option value="assmstats-contig-l50">Assembly Stats Contig L50</option> | 250 <option value="assmstats-contig-l50">Assembly Stats Contig L50</option> |
| 198 <option value="assmstats-contig-n50">Assembly Stats Contig N50</option> | 251 <option value="assmstats-contig-n50">Assembly Stats Contig N50</option> |
| 199 <option value="assmstats-gaps-between-scaffolds-count">Assembly Stats Gaps Between Scaffolds Count</option> | 252 <option value="assmstats-gaps-between-scaffolds-count">Assembly Stats Gaps Between Scaffolds Count</option> |
| 200 <option value="assmstats-gc-count">Assembly Stats GC Count</option> | |
| 201 <option value="assmstats-gc-percent">Assembly Stats GC Percent</option> | 253 <option value="assmstats-gc-percent">Assembly Stats GC Percent</option> |
| 254 <option value="assmstats-genome-coverage">Assembly Stats Genome Coverage</option> | |
| 202 <option value="assmstats-number-of-component-sequences">Assembly Stats Number of Component Sequences</option> | 255 <option value="assmstats-number-of-component-sequences">Assembly Stats Number of Component Sequences</option> |
| 203 <option value="assmstats-number-of-contigs">Assembly Stats Number of Contigs</option> | 256 <option value="assmstats-number-of-contigs">Assembly Stats Number of Contigs</option> |
| 257 <option value="assmstats-number-of-organelles">Assembly Stats Number of Organelles</option> | |
| 204 <option value="assmstats-number-of-scaffolds">Assembly Stats Number of Scaffolds</option> | 258 <option value="assmstats-number-of-scaffolds">Assembly Stats Number of Scaffolds</option> |
| 205 <option value="assmstats-scaffold-l50">Assembly Stats Scaffold L50</option> | 259 <option value="assmstats-scaffold-l50">Assembly Stats Scaffold L50</option> |
| 206 <option value="assmstats-scaffold-n50">Assembly Stats Scaffold N50</option> | 260 <option value="assmstats-scaffold-n50">Assembly Stats Scaffold N50</option> |
| 207 <option value="assmstats-total-number-of-chromosomes">Assembly Stats Total Number of Chromosomes</option> | 261 <option value="assmstats-total-number-of-chromosomes">Assembly Stats Total Number of Chromosomes</option> |
| 208 <option value="assmstats-total-sequence-len">Assembly Stats Total Sequence Length</option> | 262 <option value="assmstats-total-sequence-len">Assembly Stats Total Sequence Length</option> |
| 209 <option value="assmstats-total-ungapped-len">Assembly Stats Total Ungapped Length</option> | 263 <option value="assmstats-total-ungapped-len">Assembly Stats Total Ungapped Length</option> |
| 264 <option value="checkm-completeness">CheckM completeness</option> | |
| 265 <option value="checkm-completeness-percentile">CheckM completeness percentile</option> | |
| 266 <option value="checkm-contamination">CheckM contamination</option> | |
| 267 <option value="checkm-marker-set">CheckM marker set</option> | |
| 268 <option value="checkm-marker-set-rank">CheckM marker set rank</option> | |
| 269 <option value="checkm-species-tax-id">CheckM species tax id</option> | |
| 270 <option value="checkm-version">CheckM version</option> | |
| 210 <option value="current-accession">Current Accession</option> | 271 <option value="current-accession">Current Accession</option> |
| 211 <option value="organelle-assembly-name">Organelle Assembly Name</option> | |
| 212 <option value="organelle-bioproject-accessions">Organelle BioProject Accessions</option> | 272 <option value="organelle-bioproject-accessions">Organelle BioProject Accessions</option> |
| 213 <option value="organelle-description">Organelle Description</option> | 273 <option value="organelle-description">Organelle Description</option> |
| 214 <option value="organelle-infraspecific-name">Organelle Infraspecific Name</option> | 274 <option value="organelle-infraspecific-name">Organelle Infraspecific Name</option> |
| 215 <option value="organelle-submitter">Organelle Submitter</option> | 275 <option value="organelle-submitter">Organelle Submitter</option> |
| 216 <option value="organelle-total-seq-length">Organelle Total Seq Length</option> | 276 <option value="organelle-total-seq-length">Organelle Total Seq Length</option> |
| 223 <option value="organism-infraspecific-strain">Organism Infraspecific Names Strain</option> | 283 <option value="organism-infraspecific-strain">Organism Infraspecific Names Strain</option> |
| 224 <option value="organism-name">Organism Name</option> | 284 <option value="organism-name">Organism Name</option> |
| 225 <option value="organism-pangolin">Organism Pangolin Classification</option> | 285 <option value="organism-pangolin">Organism Pangolin Classification</option> |
| 226 <option value="organism-tax-id">Organism Taxonomic ID</option> | 286 <option value="organism-tax-id">Organism Taxonomic ID</option> |
| 227 <option value="source_database">Source Database</option> | 287 <option value="source_database">Source Database</option> |
| 288 <option value="type_material-display_text">Type Material Display Text</option> | |
| 289 <option value="type_material-label">Type Material Label</option> | |
| 228 <option value="wgs-contigs-url">WGS contigs URL</option> | 290 <option value="wgs-contigs-url">WGS contigs URL</option> |
| 229 <option value="wgs-project-accession">WGS project accession</option> | 291 <option value="wgs-project-accession">WGS project accession</option> |
| 230 <option value="wgs-url">WGS URL</option> | 292 <option value="wgs-url">WGS URL</option> |
| 231 <yield/> | 293 <yield/> |
| 232 </param> | 294 </param> |
| 235 <xml name="gene_tsv_report_columns"> | 297 <xml name="gene_tsv_report_columns"> |
| 236 <param name="report_columns" type="select" multiple="true" optional="false" label="Columns in the report"> | 298 <param name="report_columns" type="select" multiple="true" optional="false" label="Columns in the report"> |
| 237 <option value="annotation-assembly-accession">Annotation Assembly Accession</option> | 299 <option value="annotation-assembly-accession">Annotation Assembly Accession</option> |
| 238 <option value="annotation-assembly-name">Annotation Assembly Name</option> | 300 <option value="annotation-assembly-name">Annotation Assembly Name</option> |
| 239 <option value="annotation-genomic-range-accession">Annotation Genomic Range Accession</option> | 301 <option value="annotation-genomic-range-accession">Annotation Genomic Range Accession</option> |
| 240 <option value="annotation-genomic-range-exon-order">Annotation Genomic Range Exons Order</option> | 302 <option value="annotation-genomic-range-order">Annotation Genomic Range Exons Order</option> |
| 241 <option value="annotation-genomic-range-exon-orientation">Annotation Genomic Range Exons Orientation</option> | 303 <option value="annotation-genomic-range-orientation">Annotation Genomic Range Exons Orientation</option> |
| 242 <option value="annotation-genomic-range-exon-start">Annotation Genomic Range Exons Start</option> | 304 <option value="annotation-genomic-range-start">Annotation Genomic Range Exons Start</option> |
| 243 <option value="annotation-genomic-range-exon-stop">Annotation Genomic Range Exons Stop</option> | 305 <option value="annotation-genomic-range-stop">Annotation Genomic Range Exons Stop</option> |
| 244 <option value="annotation-genomic-range-range-order">Annotation Genomic Range Order</option> | |
| 245 <option value="annotation-genomic-range-range-orientation">Annotation Genomic Range Orientation</option> | |
| 246 <option value="annotation-genomic-range-range-start">Annotation Genomic Range Start</option> | |
| 247 <option value="annotation-genomic-range-range-stop">Annotation Genomic Range Stop</option> | |
| 248 <option value="annotation-genomic-range-seq-name">Annotation Genomic Range Seq Name</option> | 306 <option value="annotation-genomic-range-seq-name">Annotation Genomic Range Seq Name</option> |
| 249 <option value="annotation-release-date">Annotation Release Date</option> | 307 <option value="annotation-release-date">Annotation Release Date</option> |
| 250 <option value="annotation-release-name">Annotation Release Name</option> | 308 <option value="annotation-release-name">Annotation Release Name</option> |
| 251 <option value="chromosomes">Chromosomes</option> | 309 <option value="chromosomes">Chromosomes</option> |
| 252 <option value="common-name">Common Name</option> | 310 <option value="common-name">Common Name</option> |
| 258 <option value="genomic-region-gene-range-range-order">Genomic Region Gene Range Order</option> | 316 <option value="genomic-region-gene-range-range-order">Genomic Region Gene Range Order</option> |
| 259 <option value="genomic-region-gene-range-range-orientation">Genomic Region Gene Range Orientation</option> | 317 <option value="genomic-region-gene-range-range-orientation">Genomic Region Gene Range Orientation</option> |
| 260 <option value="genomic-region-gene-range-range-start">Genomic Region Gene Range Start</option> | 318 <option value="genomic-region-gene-range-range-start">Genomic Region Gene Range Start</option> |
| 261 <option value="genomic-region-gene-range-range-stop">Genomic Region Gene Range Stop</option> | 319 <option value="genomic-region-gene-range-range-stop">Genomic Region Gene Range Stop</option> |
| 262 <option value="genomic-region-genomic-region-type">Genomic Region Genomic Region Type</option> | 320 <option value="genomic-region-genomic-region-type">Genomic Region Genomic Region Type</option> |
| 321 <option value="go-assigned-by">Gene Ontology Assigned By</option> | |
| 322 <option value="go-bp-evidence-code">Gene Ontology Biological Process Evidence Code</option> | |
| 323 <option value="go-bp-id">Gene Ontology Biological Process Go ID</option> | |
| 324 <option value="go-bp-name">Gene Ontology Biological Process Name</option> | |
| 325 <option value="go-bp-qualifier">Gene Ontology Biological Process Qualifier</option> | |
| 326 <option value="go-bp-reference-pmid">Gene Ontology Biological Process Reference PMID</option> | |
| 327 <option value="go-cc-evidence-code">Gene Ontology Cellular Component Evidence Code</option> | |
| 328 <option value="go-cc-id">Gene Ontology Cellular Component Go ID</option> | |
| 329 <option value="go-cc-name">Gene Ontology Cellular Component Name</option> | |
| 330 <option value="go-cc-qualifier">Gene Ontology Cellular Component Qualifier</option> | |
| 331 <option value="go-cc-reference-pmid">Gene Ontology Cellular Component Reference PMID</option> | |
| 332 <option value="go-mf-evidence-code">Gene Ontology Molecular Function Evidence Code</option> | |
| 333 <option value="go-mf-id">Gene Ontology Molecular Function Go ID</option> | |
| 334 <option value="go-mf-name">Gene Ontology Molecular Function Name</option> | |
| 335 <option value="go-mf-qualifier">Gene Ontology Molecular Function Qualifier</option> | |
| 336 <option value="go-mf-reference-pmid">Gene Ontology Molecular Function Reference PMID</option> | |
| 263 <option value="group-id">Gene Group Identifier</option> | 337 <option value="group-id">Gene Group Identifier</option> |
| 264 <option value="group-method">Gene Group Method</option> | 338 <option value="group-method">Gene Group Method</option> |
| 339 <option value="locus-tag">Locus Tag</option> | |
| 265 <option value="name-authority">Nomenclature Authority</option> | 340 <option value="name-authority">Nomenclature Authority</option> |
| 266 <option value="name-id">Nomenclature ID</option> | 341 <option value="name-id">Nomenclature ID</option> |
| 267 <option value="omim-ids">OMIM IDs</option> | 342 <option value="omim-ids">OMIM IDs</option> |
| 268 <option value="orientation">Orientation</option> | 343 <option value="orientation">Orientation</option> |
| 344 <option value="protein-count">Proteins</option> | |
| 269 <option value="ref-standard-gene-range-accession">Reference Standard Gene Range Sequence Accession</option> | 345 <option value="ref-standard-gene-range-accession">Reference Standard Gene Range Sequence Accession</option> |
| 270 <option value="ref-standard-gene-range-range-order">Reference Standard Gene Range Order</option> | 346 <option value="ref-standard-gene-range-range-order">Reference Standard Gene Range Order</option> |
| 271 <option value="ref-standard-gene-range-range-orientation">Reference Standard Gene Range Orientation</option> | 347 <option value="ref-standard-gene-range-range-orientation">Reference Standard Gene Range Orientation</option> |
| 272 <option value="ref-standard-gene-range-range-start">Reference Standard Gene Range Start</option> | 348 <option value="ref-standard-gene-range-range-start">Reference Standard Gene Range Start</option> |
| 273 <option value="ref-standard-gene-range-range-stop">Reference Standard Gene Range Stop</option> | 349 <option value="ref-standard-gene-range-range-stop">Reference Standard Gene Range Stop</option> |
| 274 <option value="ref-standard-genomic-region-type">Reference Standard Genomic Region Type</option> | 350 <option value="ref-standard-genomic-region-type">Reference Standard Genomic Region Type</option> |
| 275 <option value="replaced-gene-id">Replaced NCBI GeneID</option> | 351 <option value="replaced-gene-id">Replaced NCBI GeneID</option> |
| 276 <option value="rna-type">RNA Type</option> | 352 <option value="rna-type">RNA Type</option> |
| 353 <option value="summary-date">Summary Date</option> | |
| 354 <option value="summary-description">Summary Description</option> | |
| 355 <option value="summary-source">Summary Source</option> | |
| 277 <option value="swissprot-accessions">SwissProt Accessions</option> | 356 <option value="swissprot-accessions">SwissProt Accessions</option> |
| 278 <option value="symbol">Symbol</option> | 357 <option value="symbol">Symbol</option> |
| 279 <option value="synonyms">Synonyms</option> | 358 <option value="synonyms">Synonyms</option> |
| 280 <option value="tax-id">Taxonomic ID</option> | 359 <option value="tax-id">Taxonomic ID</option> |
| 281 <option value="tax-name">Taxonomic Name</option> | 360 <option value="tax-name">Taxonomic Name</option> |
| 361 <option value="transcript-count">Transcripts</option> | |
| 282 <yield/> | 362 <yield/> |
| 283 </param> | 363 </param> |
| 284 </xml> | 364 </xml> |
| 365 | |
| 285 <xml name="prok_gene_tsv_report_columns"> | 366 <xml name="prok_gene_tsv_report_columns"> |
| 286 <param name="report_columns" type="select" multiple="true" optional="false" label="Columns in the report"> | 367 <param name="report_columns" type="select" multiple="true" optional="false" label="Columns in the report"> |
| 287 <option value="accession">Accession</option> | 368 <option value="accession">Accession</option> |
| 288 <option value="description">Description</option> | 369 <option value="description">Description</option> |
| 289 <option value="ec-number">EC Number</option> | 370 <option value="ec-number">EC Number</option> |