| src/python/ensembl/io/genomio/__init__.py |
(no function) |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/annotation/__init__.py |
(no function) |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/annotation/update_description.py |
get_core_data |
13 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/annotation/update_description.py |
load_descriptions |
19 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/annotation/update_description.py |
_get_cur_feat |
12 |
0 |
0 |
12 |
0 |
100% |
| src/python/ensembl/io/genomio/annotation/update_description.py |
_get_features_to_update |
31 |
0 |
0 |
18 |
0 |
100% |
| src/python/ensembl/io/genomio/annotation/update_description.py |
main |
13 |
13 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/annotation/update_description.py |
(no function) |
19 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/__init__.py |
(no function) |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/download.py |
establish_ftp |
12 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/download.py |
md5_files |
22 |
2 |
0 |
14 |
1 |
92% |
| src/python/ensembl/io/genomio/assembly/download.py |
get_checksums |
10 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/download.py |
download_files |
13 |
0 |
0 |
10 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/download.py |
_download_file |
34 |
3 |
0 |
14 |
3 |
88% |
| src/python/ensembl/io/genomio/assembly/download.py |
get_files_selection |
10 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/download.py |
get_root_name |
7 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/download.py |
retrieve_assembly_data |
20 |
1 |
0 |
10 |
2 |
90% |
| src/python/ensembl/io/genomio/assembly/download.py |
main |
8 |
8 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/assembly/download.py |
(no function) |
25 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/status.py |
ReportStructure.to_dict |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/status.py |
ReportStructure.header |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/status.py |
ReportStructure.values |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/status.py |
singularity_image_setter |
18 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/status.py |
get_assembly_accessions |
9 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/status.py |
fetch_accessions_from_core_dbs |
21 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/status.py |
fetch_datasets_reports |
29 |
0 |
0 |
16 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/status.py |
extract_assembly_metadata |
26 |
0 |
0 |
14 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/status.py |
generate_report_tsv |
9 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/assembly/status.py |
main |
24 |
24 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/assembly/status.py |
(no function) |
41 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/data/__init__.py |
(no function) |
0 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/data/external_db_map/__init__.py |
(no function) |
0 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/data/gff3/__init__.py |
(no function) |
0 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/data/schemas/__init__.py |
(no function) |
0 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/database/__init__.py |
(no function) |
4 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/database/core_server.py |
CoreServer.__init__ |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/database/core_server.py |
CoreServer.get_all_core_names |
5 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/database/core_server.py |
CoreServer.get_cores |
18 |
0 |
0 |
12 |
0 |
100% |
| src/python/ensembl/io/genomio/database/core_server.py |
(no function) |
11 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/database/dbconnection_lite.py |
DBConnectionLite.__init__ |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/database/dbconnection_lite.py |
DBConnectionLite.get_metadata |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/database/dbconnection_lite.py |
DBConnectionLite._load_metadata |
10 |
1 |
0 |
6 |
1 |
88% |
| src/python/ensembl/io/genomio/database/dbconnection_lite.py |
DBConnectionLite.get_meta_value |
6 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/database/dbconnection_lite.py |
DBConnectionLite.get_project_release |
4 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/database/dbconnection_lite.py |
(no function) |
15 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/database/factory.py |
format_db_data |
23 |
0 |
0 |
10 |
0 |
100% |
| src/python/ensembl/io/genomio/database/factory.py |
get_core_dbs_metadata |
10 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/database/factory.py |
parse_args |
11 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/database/factory.py |
main |
4 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/database/factory.py |
(no function) |
15 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/database/meta_getter.py |
get_meta_values |
32 |
32 |
0 |
16 |
0 |
0% |
| src/python/ensembl/io/genomio/database/meta_getter.py |
parse_args |
6 |
6 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/database/meta_getter.py |
main |
3 |
3 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/database/meta_getter.py |
(no function) |
15 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/events/__init__.py |
(no function) |
3 |
3 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Pair.__init__ |
4 |
4 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Pair.has_old_id |
1 |
1 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Pair.has_new_id |
1 |
1 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Pair.is_empty |
1 |
1 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.__init__ |
10 |
10 |
0 |
4 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.__str__ |
3 |
3 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.brc_format_1 |
20 |
20 |
0 |
8 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.brc_format_2 |
10 |
10 |
0 |
4 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.clean_set |
1 |
1 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.add_from |
2 |
2 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.add_to |
2 |
2 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.set_release |
1 |
1 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.set_date |
1 |
1 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.add_pair |
3 |
3 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.get_full_release |
6 |
6 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event._name_event |
13 |
13 |
0 |
12 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.clean_pairs |
9 |
9 |
0 |
8 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.get_name |
2 |
2 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
Event.add_pairs |
6 |
6 |
0 |
6 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
DumpStableIDs.__init__ |
1 |
1 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
DumpStableIDs.get_history |
11 |
11 |
0 |
4 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
DumpStableIDs.print_events |
8 |
8 |
0 |
6 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
DumpStableIDs.get_mapping_sessions |
3 |
3 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
DumpStableIDs.get_pairs |
6 |
6 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
DumpStableIDs.make_events |
25 |
25 |
0 |
14 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
DumpStableIDs.get_pairs_from_to |
20 |
20 |
0 |
14 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
DumpStableIDs.extend_event |
20 |
20 |
0 |
18 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
main |
12 |
12 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/dump.py |
(no function) |
49 |
49 |
2 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/format.py |
IdsMapper.__init__ |
1 |
1 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/format.py |
IdsMapper._load_mapping |
11 |
11 |
0 |
6 |
0 |
0% |
| src/python/ensembl/io/genomio/events/format.py |
load_list |
9 |
9 |
0 |
4 |
0 |
0% |
| src/python/ensembl/io/genomio/events/format.py |
main |
18 |
18 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/format.py |
(no function) |
14 |
14 |
2 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
IdEvent.__str__ |
2 |
2 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
IdEvent.is_change |
2 |
2 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
MapSession.__init__ |
3 |
3 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
MapSession.add_event |
1 |
1 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
EventCollection.__init__ |
1 |
1 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
EventCollection.load_events |
10 |
10 |
0 |
4 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
EventCollection.add_deletes |
3 |
3 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
EventCollection.load_events_from_gene_diff |
17 |
17 |
0 |
10 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
EventCollection._parse_gene_diff_event |
12 |
12 |
0 |
6 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
EventCollection.remap_to_ids |
12 |
12 |
0 |
10 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
EventCollection.write_events_to_file |
4 |
4 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
EventCollection.write_events_to_db |
26 |
26 |
0 |
16 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
main |
13 |
13 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/events/load.py |
(no function) |
35 |
35 |
2 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/external_db/__init__.py |
(no function) |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/external_db/db_map.py |
get_external_db_map |
12 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/external_db/db_map.py |
(no function) |
8 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/fasta/__init__.py |
(no function) |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/fasta/chunk.py |
_on_value_error |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/fasta/chunk.py |
check_chunk_size_and_tolerance |
4 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/fasta/chunk.py |
split_seq_by_n |
7 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/fasta/chunk.py |
split_seq_by_chunk_size |
13 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/fasta/chunk.py |
_individual_file_opener |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/fasta/chunk.py |
chunk_fasta_stream |
32 |
0 |
0 |
10 |
2 |
95% |
| src/python/ensembl/io/genomio/fasta/chunk.py |
get_tolerated_size |
4 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/fasta/chunk.py |
chunk_fasta |
7 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/fasta/chunk.py |
prepare_out_dir_for_individuals |
5 |
0 |
0 |
2 |
1 |
86% |
| src/python/ensembl/io/genomio/fasta/chunk.py |
main |
18 |
18 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/fasta/chunk.py |
(no function) |
24 |
0 |
2 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/fasta/process.py |
get_peptides_to_exclude |
12 |
0 |
0 |
10 |
0 |
100% |
| src/python/ensembl/io/genomio/fasta/process.py |
prep_fasta_data |
16 |
1 |
0 |
8 |
1 |
92% |
| src/python/ensembl/io/genomio/fasta/process.py |
main |
10 |
10 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/fasta/process.py |
(no function) |
15 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/__init__.py |
(no function) |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/download.py |
DownloadError.__init__ |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/download.py |
download_genbank |
11 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/download.py |
main |
8 |
8 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/genbank/download.py |
(no function) |
12 |
0 |
2 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
GenomeFiles.__init__ |
7 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator.__init__ |
5 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator.parse_genbank |
12 |
1 |
0 |
6 |
2 |
83% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator.format_write_record |
4 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._get_organella |
9 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._write_fasta_dna |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._format_write_genes_gff |
22 |
0 |
0 |
14 |
3 |
92% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._write_genes_gff |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._write_pep_fasta |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._parse_record |
24 |
0 |
0 |
10 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._parse_gene_feat |
47 |
4 |
0 |
24 |
5 |
87% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._parse_rna_feat |
21 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._uniquify_id |
8 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._format_write_seq_json |
15 |
3 |
0 |
8 |
3 |
74% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._write_seq_region_json |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._get_codon_table |
7 |
1 |
0 |
6 |
1 |
85% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._prepare_location |
3 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._format_genome_data |
7 |
1 |
0 |
2 |
1 |
78% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
FormattedFilesGenerator._write_genome_json |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
main |
11 |
11 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/genbank/extract_data.py |
(no function) |
41 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/__init__.py |
(no function) |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/dump.py |
get_genome_metadata |
22 |
0 |
0 |
18 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/dump.py |
filter_genome_meta |
23 |
1 |
0 |
18 |
1 |
95% |
| src/python/ensembl/io/genomio/genome_metadata/dump.py |
check_assembly_refseq |
7 |
4 |
0 |
4 |
1 |
36% |
| src/python/ensembl/io/genomio/genome_metadata/dump.py |
check_assembly_version |
13 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/dump.py |
check_genebuild_version |
11 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/dump.py |
convert_dict |
6 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/dump.py |
metadata_dump_setup |
12 |
12 |
0 |
4 |
0 |
0% |
| src/python/ensembl/io/genomio/genome_metadata/dump.py |
parse_args |
8 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/dump.py |
main |
4 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/dump.py |
(no function) |
26 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/extend.py |
get_additions |
11 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/extend.py |
get_gbff_regions |
7 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/extend.py |
_report_to_csv |
15 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/extend.py |
get_report_regions_names |
14 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/extend.py |
amend_genome_metadata |
8 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/extend.py |
main |
10 |
10 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/genome_metadata/extend.py |
(no function) |
19 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/prepare.py |
add_provider |
15 |
0 |
0 |
10 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/prepare.py |
add_assembly_version |
6 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/prepare.py |
add_genebuild_metadata |
6 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_metadata/prepare.py |
add_species_metadata |
13 |
2 |
0 |
4 |
1 |
82% |
| src/python/ensembl/io/genomio/genome_metadata/prepare.py |
prepare_genome_metadata |
9 |
0 |
0 |
2 |
1 |
91% |
| src/python/ensembl/io/genomio/genome_metadata/prepare.py |
main |
9 |
9 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/genome_metadata/prepare.py |
(no function) |
17 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/__init__.py |
(no function) |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/compare.py |
stats_dict_cmp |
14 |
0 |
0 |
10 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/compare.py |
compare_assembly |
19 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/compare.py |
compare_annotation |
9 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/compare.py |
compare_stats |
7 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/compare.py |
compare_stats_files |
5 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/compare.py |
main |
9 |
9 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/genome_stats/compare.py |
(no function) |
15 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/dump.py |
StatsGenerator.get_assembly_stats |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/dump.py |
StatsGenerator._fix_scaffolds |
4 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/dump.py |
StatsGenerator.get_attrib_counts |
6 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/dump.py |
StatsGenerator.get_annotation_stats |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/dump.py |
StatsGenerator.get_biotypes |
6 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/dump.py |
StatsGenerator.get_feature_stats |
10 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/dump.py |
StatsGenerator.get_genome_stats |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/dump.py |
dump_genome_stats |
5 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/genome_stats/dump.py |
main |
8 |
8 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/genome_stats/dump.py |
(no function) |
25 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/__init__.py |
(no function) |
6 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/exceptions.py |
GFFParserError.__init__ |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/exceptions.py |
(no function) |
6 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations.__init__ |
4 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations.get_xrefs |
16 |
0 |
0 |
14 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations.get_features |
4 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations.add_parent_link |
4 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations.get_parent |
8 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations.add_feature |
12 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations._generic_feature |
24 |
3 |
0 |
18 |
3 |
86% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations.transfer_descriptions |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations._transfer_description_up |
12 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations._clean_description |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations.product_is_informative |
15 |
2 |
0 |
4 |
0 |
89% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations._to_list |
4 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations.to_json |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
FunctionalAnnotations.store_gene |
7 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/extract_annotation.py |
(no function) |
31 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/features.py |
GFFSeqFeature.__init__ |
4 |
0 |
0 |
2 |
1 |
83% |
| src/python/ensembl/io/genomio/gff3/features.py |
GFFSeqFeature.cast |
4 |
1 |
0 |
2 |
1 |
67% |
| src/python/ensembl/io/genomio/gff3/features.py |
(no function) |
7 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/gene_merger.py |
GFFGeneMerger.__init__ |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/gene_merger.py |
GFFGeneMerger.merge |
36 |
0 |
0 |
18 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/gene_merger.py |
GFFGeneMerger._merge_genes |
17 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/gene_merger.py |
(no function) |
13 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/id_allocator.py |
StableIDAllocator.set_prefix |
6 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/id_allocator.py |
StableIDAllocator.generate_gene_id |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/id_allocator.py |
StableIDAllocator.is_valid |
16 |
0 |
0 |
10 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/id_allocator.py |
StableIDAllocator.remove_prefix |
4 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/id_allocator.py |
StableIDAllocator.generate_transcript_id |
4 |
1 |
0 |
2 |
1 |
67% |
| src/python/ensembl/io/genomio/gff3/id_allocator.py |
StableIDAllocator.normalize_cds_id |
5 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/id_allocator.py |
StableIDAllocator.normalize_pseudogene_cds_id |
7 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/id_allocator.py |
StableIDAllocator.normalize_gene_id |
32 |
3 |
0 |
18 |
2 |
86% |
| src/python/ensembl/io/genomio/gff3/id_allocator.py |
(no function) |
25 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/overlaps.py |
summarize_feature_stats |
5 |
5 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/gff3/overlaps.py |
identify_feature_overlaps |
21 |
21 |
0 |
4 |
0 |
0% |
| src/python/ensembl/io/genomio/gff3/overlaps.py |
scan_tree |
8 |
8 |
0 |
6 |
0 |
0% |
| src/python/ensembl/io/genomio/gff3/overlaps.py |
_write_report |
16 |
16 |
0 |
4 |
0 |
0% |
| src/python/ensembl/io/genomio/gff3/overlaps.py |
get_intervals |
7 |
7 |
0 |
6 |
0 |
0% |
| src/python/ensembl/io/genomio/gff3/overlaps.py |
main |
17 |
17 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/gff3/overlaps.py |
(no function) |
20 |
0 |
2 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/process.py |
main |
27 |
27 |
0 |
4 |
0 |
0% |
| src/python/ensembl/io/genomio/gff3/process.py |
(no function) |
8 |
0 |
2 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/restructure.py |
_get_feat_counts |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/restructure.py |
restructure_gene |
11 |
1 |
0 |
4 |
1 |
87% |
| src/python/ensembl/io/genomio/gff3/restructure.py |
add_transcript_to_naked_gene |
6 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/restructure.py |
move_only_cdss_to_new_mrna |
17 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/restructure.py |
move_only_exons_to_new_mrna |
8 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/restructure.py |
move_cds_to_existing_mrna |
29 |
0 |
0 |
18 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/restructure.py |
_check_sub_exons |
12 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/restructure.py |
remove_extra_exons |
22 |
0 |
0 |
16 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/restructure.py |
remove_cds_from_pseudogene |
14 |
0 |
0 |
10 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/restructure.py |
(no function) |
15 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
Records.from_gff |
10 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
Records.to_gff |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier.__init__ |
18 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier.get_provider_name |
9 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier.simpler_gff3 |
18 |
0 |
0 |
10 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier.simpler_gff3_feature |
15 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier.create_gene_for_lone_transcript |
27 |
0 |
0 |
14 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier.create_gene_for_lone_cds |
21 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier.normalize_non_gene |
9 |
0 |
1 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier._normalize_mobile_genetic_element |
14 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier.clean_gene |
11 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier.normalize_gene |
5 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier.normalize_pseudogene |
5 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier.normalize_transcripts |
16 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier.format_gene_segments |
12 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier._get_segment_type |
10 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier._normalize_transcript_subfeatures |
24 |
0 |
0 |
14 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
GFFSimplifier.normalize_mirna |
44 |
0 |
0 |
16 |
0 |
100% |
| src/python/ensembl/io/genomio/gff3/simplifier.py |
(no function) |
37 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/__init__.py |
(no function) |
4 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/check_integrity.py |
IntegrityTool.__init__ |
5 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/check_integrity.py |
IntegrityTool.add_errors |
3 |
3 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/check_integrity.py |
IntegrityTool.check_integrity |
46 |
46 |
0 |
20 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/check_integrity.py |
IntegrityTool.set_ignore_final_stops |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/check_integrity.py |
IntegrityTool._check_genome |
5 |
5 |
0 |
4 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/check_integrity.py |
IntegrityTool.check_ids |
20 |
20 |
0 |
14 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/check_integrity.py |
IntegrityTool.check_lengths |
29 |
29 |
0 |
18 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/check_integrity.py |
IntegrityTool.check_seq_region_lengths |
19 |
19 |
0 |
12 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/check_integrity.py |
IntegrityTool._compare_seqs |
14 |
14 |
0 |
12 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/check_integrity.py |
main |
10 |
10 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/check_integrity.py |
(no function) |
20 |
0 |
2 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
BiotypeCounter.__init__ |
7 |
7 |
0 |
4 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
BiotypeCounter.add_id |
2 |
2 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
BiotypeCounter.unique_count |
1 |
1 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
manifest_stats.__init__ |
9 |
9 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
manifest_stats.run |
14 |
14 |
0 |
10 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
manifest_stats.get_manifest |
14 |
14 |
0 |
8 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
manifest_stats.get_seq_region_stats |
25 |
25 |
0 |
10 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
manifest_stats.coord_systems_stats |
10 |
10 |
0 |
6 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
manifest_stats.seq_region_special_stats |
14 |
14 |
0 |
12 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
manifest_stats.get_gff3_stats |
4 |
4 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
manifest_stats.count_biotypes |
25 |
25 |
0 |
22 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
manifest_stats.biotypes_stats |
6 |
6 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
manifest_stats.check_ncbi_stats |
20 |
20 |
0 |
12 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
manifest_stats.compare_ncbi_counts |
14 |
14 |
0 |
6 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
manifest_stats.increment_biotype |
3 |
3 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
main |
14 |
14 |
0 |
2 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/compute_stats.py |
(no function) |
33 |
0 |
2 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/generate.py |
main |
8 |
8 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/manifest/generate.py |
(no function) |
5 |
0 |
2 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats.__init__ |
6 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats._get_manifest |
8 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats.add_error |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats.load_seq_regions |
17 |
0 |
0 |
10 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats.load_peptides_fasta_lengths |
3 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats.load_dna_fasta_lengths |
3 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats._get_fasta_lengths |
29 |
0 |
0 |
18 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats.load_functional_annotation |
17 |
0 |
0 |
10 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats.load_gff3 |
21 |
0 |
0 |
10 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats._retrieve_gff_gene_lengths |
22 |
0 |
0 |
12 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats.load_agp_seq_regions |
15 |
13 |
0 |
12 |
1 |
11% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats.load_genome |
4 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats.prepare_integrity_data |
7 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats.has_lengths |
4 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats.get_lengths |
4 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
ManifestStats.get_circular |
4 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest_stats.py |
(no function) |
33 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest.py |
Manifest.__init__ |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest.py |
Manifest.create |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest.py |
Manifest.get_files_checksums |
26 |
0 |
0 |
14 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest.py |
Manifest._prepare_object_name |
14 |
3 |
0 |
6 |
1 |
80% |
| src/python/ensembl/io/genomio/manifest/manifest.py |
Manifest.load |
15 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest.py |
Manifest._get_md5sum |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest.py |
Manifest._check_md5sum |
3 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/manifest/manifest.py |
(no function) |
22 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/schemas/__init__.py |
(no function) |
0 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/schemas/json/__init__.py |
(no function) |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/schemas/json/factory.py |
schema_factory |
19 |
0 |
0 |
16 |
0 |
100% |
| src/python/ensembl/io/genomio/schemas/json/factory.py |
main |
9 |
9 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/schemas/json/factory.py |
(no function) |
11 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/schemas/json/validate.py |
schema_validator |
7 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/schemas/json/validate.py |
main |
6 |
6 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/schemas/json/validate.py |
(no function) |
16 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/__init__.py |
(no function) |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/collection.py |
SeqCollection.__init__ |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/collection.py |
SeqCollection.from_gbff |
7 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/collection.py |
SeqCollection._merge |
7 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/collection.py |
SeqCollection.make_seqregion_from_gbff |
13 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/collection.py |
SeqCollection.from_report |
6 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/collection.py |
SeqCollection.make_seq_region_from_report |
29 |
0 |
0 |
12 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/collection.py |
SeqCollection.remove |
4 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/collection.py |
SeqCollection.add_translation_table |
5 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/collection.py |
SeqCollection.add_mitochondrial_codon_table |
19 |
0 |
0 |
12 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/collection.py |
SeqCollection.to_list |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/collection.py |
(no function) |
27 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/dump.py |
fetch_coord_systems |
4 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/dump.py |
fetch_seq_regions |
4 |
0 |
0 |
2 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/dump.py |
get_attribs_dict |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/dump.py |
add_attribs |
15 |
0 |
0 |
12 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/dump.py |
get_synonyms |
13 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/dump.py |
get_karyotype |
15 |
0 |
0 |
10 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/dump.py |
get_added_sequence |
12 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/dump.py |
get_seq_regions |
24 |
0 |
0 |
14 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/dump.py |
main |
13 |
13 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/seq_region/dump.py |
(no function) |
23 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/exceptions.py |
(no function) |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/gbff.py |
GBFFRecord.get_genbank_id |
8 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/gbff.py |
GBFFRecord.get_codon_table |
4 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/gbff.py |
GBFFRecord.get_organelle |
14 |
0 |
0 |
6 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/gbff.py |
GBFFRecord.is_circular |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/gbff.py |
(no function) |
14 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/mappings.py |
(no function) |
6 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/prepare.py |
prepare_seq_region_metadata |
12 |
0 |
0 |
4 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/prepare.py |
main |
12 |
12 |
0 |
0 |
0 |
0% |
| src/python/ensembl/io/genomio/seq_region/prepare.py |
(no function) |
9 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/report.py |
ReportRecord.__init__ |
3 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/report.py |
ReportRecord.report_to_csv |
15 |
0 |
0 |
8 |
0 |
100% |
| src/python/ensembl/io/genomio/seq_region/report.py |
(no function) |
11 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/utils/__init__.py |
(no function) |
1 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/utils/json_utils.py |
get_json |
2 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/utils/json_utils.py |
print_json |
4 |
0 |
0 |
0 |
0 |
100% |
| src/python/ensembl/io/genomio/utils/json_utils.py |
(no function) |
7 |
0 |
0 |
0 |
0 |
100% |