Deployed 51a1a4a to v0.3.1 with MkDocs 1.6.0 and mike 2.1.2

v0.3.1/api/index.html

@@ -1373,6 +1373,36 @@ <h1>Overview</h1>
 <td>Alias for <code>run_blast</code> with <code>tblastn</code> specified</td>
 </tr>
 <tr>
+<td>Framework</td>
+<td><a href="framework/">camlhmp.framework</a></td>
+<td><a href="framework/#camlhmp.framework.read_framework">read_framework</a></td>
+<td>Read the framework YAML file</td>
+</tr>
+<tr>
+<td>Framework</td>
+<td><a href="framework/">camlhmp.framework</a></td>
+<td><a href="framework/#camlhmp.framework.print_version">print_version</a></td>
+<td>Print the version of the framework</td>
+</tr>
+<tr>
+<td>Framework</td>
+<td><a href="framework/">camlhmp.framework</a></td>
+<td><a href="framework/#camlhmp.framework.get_types">get_types</a></td>
+<td>Get the types from the framework</td>
+</tr>
+<tr>
+<td>Framework</td>
+<td><a href="framework/">camlhmp.framework</a></td>
+<td><a href="framework/#camlhmp.framework.check_types">check_types</a></td>
+<td>Check the types against the results</td>
+</tr>
+<tr>
+<td>Framework</td>
+<td><a href="framework/">camlhmp.framework</a></td>
+<td><a href="framework/#camlhmp.framework.check_regions">check_regions</a></td>
+<td>Check the region types against the results</td>
+</tr>
+<tr>
 <td>Parser</td>
 <td><a href="parsers/blast/">camlhmp.parsers.blast</a></td>
 <td><a href="parsers/blast/#camlhmp.parsers.blast.get_blast_allele_hits">get_blast_allele_hits</a></td>
@@ -1385,11 +1415,71 @@ <h1>Overview</h1>
 <td>Parse BLAST output for region hits</td>
 </tr>
 <tr>
-<td>parser</td>
+<td>Parser</td>
 <td><a href="parsers/blast/">camlhmp.parsers.blast</a></td>
 <td><a href="parsers/blast/#camlhmp.parsers.blast.get_blast_target_hits">get_blast_target_hits</a></td>
 <td>Parse BLAST output for target hits</td>
 </tr>
+<tr>
+<td>Utils</td>
+<td><a href="utils/">camlhmp.utils</a></td>
+<td><a href="utils/#camlhmp.utils.execute">execute</a></td>
+<td>Execute a command</td>
+</tr>
+<tr>
+<td>Utils</td>
+<td><a href="utils/">camlhmp.utils</a></td>
+<td><a href="utils/#camlhmp.utils.check_dependencies">check_dependencies</a></td>
+<td>Check if all dependencies are installed</td>
+</tr>
+<tr>
+<td>Utils</td>
+<td><a href="utils/">camlhmp.utils</a></td>
+<td><a href="utils/#camlhmp.utils.get_platform">get_platform</a></td>
+<td>Get the platform of the executing machine</td>
+</tr>
+<tr>
+<td>Utils</td>
+<td><a href="utils/">camlhmp.utils</a></td>
+<td><a href="utils/#camlhmp.utils.validate_file">validate_file</a></td>
+<td>Validate a file exists and not empty</td>
+</tr>
+<tr>
+<td>Utils</td>
+<td><a href="utils/">camlhmp.utils</a></td>
+<td><a href="utils/#camlhmp.utils.file_exists_error">file_exists_error</a></td>
+<td>Determine if a file exists and raise an error</td>
+</tr>
+<tr>
+<td>Utils</td>
+<td><a href="utils/">camlhmp.utils</a></td>
+<td><a href="utils/#camlhmp.utils.parse_seq">parse_seq</a></td>
+<td>Parse a sequence file containing a single record</td>
+</tr>
+<tr>
+<td>Utils</td>
+<td><a href="utils/">camlhmp.utils</a></td>
+<td><a href="utils/#camlhmp.utils.parse_seqs">parse_seqs</a></td>
+<td>Parse a sequence file containing a multiple records</td>
+</tr>
+<tr>
+<td>Utils</td>
+<td><a href="utils/">camlhmp.utils</a></td>
+<td><a href="utils/#camlhmp.utils.parse_table">parse_table</a></td>
+<td>Parse a delimited file</td>
+</tr>
+<tr>
+<td>Utils</td>
+<td><a href="utils/">camlhmp.utils</a></td>
+<td><a href="utils/#camlhmp.utils.parse_yaml">parse_yaml</a></td>
+<td>Parse a YAML file</td>
+</tr>
+<tr>
+<td>Utils</td>
+<td><a href="utils/">camlhmp.utils</a></td>
+<td><a href="utils/#camlhmp.utils.write_tsv">write_tsv</a></td>
+<td>Write the dictionary to a TSV file</td>
+</tr>
 </tbody>
 </table>