PoonLab sierra-local issues

PoonLab / sierra-local

Retrieve HIVdb algorithm as XML and apply locally to HIV sequences

GNU General Public License v3.0

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issues

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AttributeError: 'xml.etree.ElementTree.Element' object has no attribute 'getchildren'

#104 marcbennedbaek closed 2 months ago
4
New release

#103 raquelriyuzo closed 6 months ago
2
fixed import error from removing subtyper script

#102 WilliamZekaiWang closed 9 months ago
0
Subtyper module

#101 Kanyerezi30 closed 9 months ago
2
fixes to #99 and deprecating subtyping

#100 WilliamZekaiWang closed 9 months ago
0
NRTI resistance profile

#99 Kanyerezi30 closed 9 months ago
3
Issue 72 fix for NNN nucleotides

#98 WilliamZekaiWang closed 10 months ago
0
Iss72

#97 WilliamZekaiWang closed 11 months ago
0
Unkown subtype

#96 erick-dorlass closed 10 months ago
6
fixes to isInsertion (issue #91)

#95 WilliamZekaiWang closed 1 year ago
0
JSON to CSV conversion Error: json2csv.py

#94 gpcr closed 1 year ago
5
fixes to #92

#93 ArtPoon closed 1 year ago
0
TypeError: unsupported operand type(s) for -: 'int' and 'NoneType'

#92 aguang closed 1 year ago
2
Missing T69S_SS (T69ins) mutation

#91 Kanyerezi30 closed 1 year ago
10
DOR resistance level

#90 Kanyerezi30 closed 1 year ago
3
setup.py and postalign

#89 aguang closed 1 year ago
2
Updating Post-align Dependencies

#88 WilliamZekaiWang closed 1 year ago
0
postalign vs nucamino

#87 Kanyerezi30 closed 1 year ago
11
Adding subtyping option and fixes to -json

#86 WilliamZekaiWang closed 1 year ago
4
Subtyping

#85 Kanyerezi30 closed 1 year ago
2
Missing required dependencies: cython==0.29.32, postalign @ https://github.com/hivdb/post-align

#84 Kanyerezi30 closed 1 year ago
8
Adding Postalign as Alignment Program

#83 WilliamZekaiWang closed 1 year ago
0
Switch to postalign and updating unit tests, resources

#82 ArtPoon closed 1 year ago
2
Add postalign as a submodule

#81 ArtPoon closed 1 year ago
0
Test coverage improvement issue for `get_closest_subtype` function of `subtyper.py`

#80 SandeepThokala closed 1 year ago
3
issue while testing `update_hivdb` function of `updater.py`

#79 SandeepThokala closed 1 year ago
0
Update dev branch with recent changes

#78 GopiGugan closed 1 year ago
1
Issue when testing `align_file` method of `NucAminoAligner`

#77 SandeepThokala closed 1 year ago
1
Issue with `scorerange` parameter of `parse_globalrange` method

#76 SandeepThokala closed 1 year ago
3
AttributeError, when testing `parse_definitions`, `parse_drugs` and `parse_comments`

#75 SandeepThokala closed 1 year ago
1
RuntimeError, when testing `HIVdb.set_hivdb_xml` method in ./sierralocal/hivdb.py

#74 SandeepThokala closed 1 year ago
1
TypeError, when testing `score_single` function in ./sierralocal/score_alg.py

#73 SandeepThokala closed 1 year ago
1
Fail to run with iupac codes

#72 erick-dorlass closed 10 months ago
19
Alignment Program

#71 Kanyerezi30 closed 1 year ago
22
list index out of range for hivdb versions 9.3 and 9.4

#70 Kanyerezi30 closed 1 year ago
4
Incorrect NA sequence from nucamino

#69 WilliamZekaiWang closed 1 year ago
4
Use submodule to retrieve data files

#68 GopiGugan closed 1 year ago
2
AttributeError: 'xml.etree.ElementTree.Element' object has no attribute 'getchildren'

#67 ArtPoon closed 1 year ago
8
Failure to update HIVDB and APOBEC DRMS

#66 Kanyerezi30 closed 1 year ago
5
Sierra-local output file does not match with Sierrapy

#65 GopiGugan closed 1 year ago
18
Problem running updater script

#64 ArtPoon closed 2 years ago
6
User request: support AAVF or CodFreq input file formats

#63 ArtPoon opened 3 years ago
1
Write unit test suite

#62 ArtPoon closed 1 year ago
6
HIVdb algorithm initialization code is in JSONWriter

#61 ArtPoon opened 5 years ago
0
Distribute ASI2 XML to improve user experience

#60 ArtPoon closed 5 years ago
0
HIVdb swiched from static to dynamic HTML for DRM ASI2 files

#59 ArtPoon closed 5 years ago
1
HIVdb assets blocked with 403

#58 ArtPoon closed 5 years ago
0
sierralocal fails on macOS High Sierra with Python 3.7.4

#57 ArtPoon closed 5 years ago
1
Stanford HIVdb moved data sets

#56 ArtPoon closed 5 years ago
0
installation tests

#55 ghost closed 5 years ago
4