History¶
0.1.0 (2019-03-03)¶
First release on PyPI.
0.1.1 (2019-03-04)¶
Clean installation requirements for conda;
Update documentation.
0.1.2 (2019-03-15)¶
Classes and methods are protected where needed;
Code style is clean.
0.1.3 (2019-03-17)¶
Fix issue with
--predict
annotation, which didn’t retrieve the correct field from HmtVar.
0.1.4 (2019-03-19)¶
Fix issue that prevented importing
annotate_vcf()
into Python scripts.
0.1.5 (2019-03-20)¶
Add HmtVar ID of the variant in basic and full annotation;
Change
Disease Score
annotation toDiseaseScore
.
0.2.0 (2019-03-25)¶
Add warnings to
hmtnote
command to be compliant with future versions;Check internet connection before trying to annotate variants.
0.3.0 (2019-03-27)¶
Add options to download the annotation database locally;
Use local database to annotate variants (instead of calling HmtVar’s API);
Fallback to using local database when no internet connection is available;
Check if local database actually exists before performing offline annotation;
Databases are downloaded asynchronously.
0.3.1 (2019-03-29)¶
Update installation requirements and documentation.
0.4.0 (2019-04-03)¶
Add support for insertion and deletion annotations;
Add test suite and files for indels.
0.5.0 (2019-04-28)¶
Replace VCF parsing using VCFpy instead of cyvcf2;
Rename
hmtnote.annotate_vcf()
tohmtnote.annotate()
for compliance with CLI.
0.5.1 (2019-04-29)¶
Fix issue with the new VCFpy implementation where new info where badly reported;
Update test files restricting the number of entries to 80 for faster testing.
0.5.2 (2019-04-30)¶
Fix requirements in setup.py file.
0.5.3 (2019-05-06)¶
Update requirements in setup.py.
0.5.4 (2019-05-06)¶
Fix installation issue.
0.5.5 (2019-05-06)¶
Fix VCF record parsing issue.
0.6.0 (2019-06-25)¶
Use vcfpy2 for VCF files parsing;
Dump annotation files directly from HmtVar instead of the original API call;
Add annotation progress bar;
Check internet connection using httpstat.us;
Update tests and add more test cases;
Update documentation with detailed API usage.