cfe-lab MiCall issues - Githubissues

cfe-lab / MiCall

Pipeline for processing FASTQ data from an Illumina MiSeq to genotype human RNA viruses like HIV and hepatitis C

https://cfe-lab.github.io/MiCall

GNU Affero General Public License v3.0

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issues

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Bump ruff from 0.7.2 to 0.7.4

#1199 dependabot[bot] opened 5 days ago
0
Bump coverage from 7.6.4 to 7.6.7

#1198 dependabot[bot] opened 5 days ago
0
Bump coverage from 7.6.4 to 7.6.5

#1197 dependabot[bot] closed 5 days ago
2
Bump ruff from 0.7.2 to 0.7.3

#1196 dependabot[bot] closed 5 days ago
1
Bump numpy from 2.1.2 to 2.1.3

#1195 dependabot[bot] closed 2 weeks ago
0
Bump ruff from 0.7.1 to 0.7.2

#1194 dependabot[bot] closed 2 weeks ago
0
Decide what to do with coverage reporting in presence of large deletions.

#1193 Donaim opened 3 weeks ago
1
Backporting changes to 7.17.1

#1192 Donaim closed 3 weeks ago
0
Add `HIV-AD` project definition

#1191 Donaim opened 3 weeks ago
0
Bump aligntools from 1.2.0 to 1.2.1

#1190 dependabot[bot] closed 3 weeks ago
0
Small improvements to installation

#1189 Donaim closed 3 weeks ago
0
Change default log file path to `/tmp/micall.log`

#1188 Donaim closed 3 weeks ago
0
Split denovo dependencies

#1187 Donaim closed 3 weeks ago
0
Improve contig stitcher quality

#1186 Donaim closed 3 weeks ago
0
Improve implementation of Alignment class

#1185 Donaim closed 3 weeks ago
0
Update mypy version

#1184 Donaim closed 3 weeks ago
0
Remove unnecessary type: ignore in denovo.py

#1183 Donaim closed 3 weeks ago
0
Bump rexml from 3.3.7 to 3.3.9 in /docs

#1182 dependabot[bot] closed 3 weeks ago
0
Fix type error in denovo.py

#1181 Donaim closed 3 weeks ago
0
Bump mypy from 1.10.0 to 1.13.0

#1180 dependabot[bot] closed 3 weeks ago
1
Bump pytest from 8.2.2 to 8.3.3

#1179 dependabot[bot] closed 3 weeks ago
0
Bump reportlab from 4.2.0 to 4.2.5

#1178 dependabot[bot] closed 3 weeks ago
0
Bump pyyaml from 6.0.1 to 6.0.2

#1177 dependabot[bot] closed 3 weeks ago
0
Bump python-levenshtein from 0.25.1 to 0.26.1

#1176 dependabot[bot] closed 3 weeks ago
0
Bump pytz from 2024.1 to 2024.2

#1175 dependabot[bot] closed 3 weeks ago
0
Bump biopython from 1.83 to 1.84

#1174 dependabot[bot] closed 3 weeks ago
0
Bump ruff from 0.7.0 to 0.7.1

#1173 dependabot[bot] closed 3 weeks ago
0
Update core python dependencies

#1172 Donaim closed 4 weeks ago
0
Remove code for removal of overlapping regions in Aligner

#1171 Donaim closed 4 weeks ago
0
Update aligntools

#1170 Donaim closed 4 weeks ago
0
Specify aligntools version

#1169 Donaim closed 4 weeks ago
0
Update python to version 3.12

#1168 Donaim opened 4 weeks ago
2
Update to python version 3.11

#1167 Donaim closed 4 weeks ago
0
Connect non-overlaping alignments in consensus aligner

#1166 Donaim closed 4 weeks ago
0
Switch to aligntools in consensus_aligner

#1165 Donaim closed 1 month ago
0
Rename "fasta_to_svg" to "fasta_to_csv"

#1164 Donaim closed 1 month ago
0
Switch to aligntools in ConsensusAligner

#1163 Donaim closed 1 month ago
0
Add ruff support

#1162 Donaim closed 1 month ago
0
Update devcontainer

#1161 Donaim closed 1 month ago
0
Bump coverage from 7.5.3 to 7.6.4

#1160 dependabot[bot] closed 4 weeks ago
2
Remove gui/ directory

#1159 Donaim closed 1 month ago
0
Simplify comparison of project definitions

#1158 donkirkby opened 1 month ago
0
Introduce `pyproject.toml`

#1157 Donaim closed 1 month ago
1
Bump coverage from 7.5.3 to 7.6.3

#1156 dependabot[bot] closed 1 month ago
1
Bump coverage from 7.5.3 to 7.6.2

#1155 dependabot[bot] closed 1 month ago
1
Bump numpy from 1.24.3 to 2.1.2

#1154 dependabot[bot] closed 4 weeks ago
3
Add "MiCall at BC CfE" page to docs

#1153 Donaim closed 1 month ago
0
Bump pandas from 2.0.2 to 2.2.3

#1152 dependabot[bot] closed 4 weeks ago
1
Ensure that collated subdirectories are archived deterministically

#1150 Donaim opened 2 months ago
2
Bump numpy from 1.24.3 to 2.1.1

#1149 dependabot[bot] closed 1 month ago
1