Skip to content

Support pandas 3 with Sercol 1.0.3 (10.10.1) #562

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
iskandr merged 2 commits into from
Sep 29, 2026
Merged

Support pandas 3 with Sercol 1.0.3 (10.10.1) #562

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
2 commits
Select commit Hold shift + click to select a range
fe68cb0
Support pandas 3 with Sercol 1.0.3 (10.9.1)
iskandr Sep 29, 2026
fa232e1
Align explicit genome URLs with CI and avoid duplicate matrices
iskandr Sep 29, 2026
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
5 changes: 4 additions & 1 deletion .github/workflows/tests.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -6,7 +6,10 @@
# - get a badge for tests passing
# - download binary dependencies from conda
name: Tests
on: [push, pull_request]
on:
push:
branches: [main]
pull_request:

jobs:
build:
Expand Down
4 changes: 2 additions & 2 deletions requirements.txt
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
numpy>=2.0.0,<3.0.0
pandas>=2.0.0,<3.0.0
pandas>=2.0.0,<4.0.0
pyensembl>=2.6.4
memoized_property>=1.0.2
serializable>=1.1.0
sercol>=0.1.4
sercol>=1.0.3
6 changes: 3 additions & 3 deletions tests/test_mouse.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -18,12 +18,12 @@
from .data import data_path

MOUSE_ENSEMBL_RELEASE = 95
SERVER = "ftp://ftp.ensembl.org"
SERVER = "https://ftp.ensembl.org"
MOUSE_GTF_PATH = \
SERVER + "/pub/release-%d/gtf/mus_musculus/Mus_musculus.GRCm38.%d.gtf.gz" % (
SERVER + "/pub/release-%d/gtf/mus_musculus/Mus_musculus.GRCm38.%d.chr_patch_hapl_scaff.gtf.gz" % (
MOUSE_ENSEMBL_RELEASE, MOUSE_ENSEMBL_RELEASE)
MOUSE_TRANSCRIPT_FASTA_PATH = \
SERVER + "/pub/release-%d/fasta/mus_musculus/cdna/Mus_musculus.GRCm38.cdna.all.fa.gz"
SERVER + "/pub/release-%d/fasta/mus_musculus/cdna/Mus_musculus.GRCm38.cdna.all.fa.gz" % MOUSE_ENSEMBL_RELEASE
MOUSE_PROTEIN_FASTA_PATH = \
SERVER + "/pub/release-%d/fasta/mus_musculus/pep/Mus_musculus.GRCm38.pep.all.fa.gz" % (
MOUSE_ENSEMBL_RELEASE)
Expand Down
2 changes: 1 addition & 1 deletion varcode/version.py
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1 +1 @@
__version__ = "10.10.0"
__version__ = "10.10.1"
Loading