Merge pull request #255 from jeromekelleher/pin-numpy-zarr

Distribution maintenance

CHANGELOG.md

@@ -1,3 +1,10 @@
+# 0.1.1 2024-06-19
+
+Maintenance release:
+
+- Pin numpy to < 2 
+- Pin Zarr to < 3
+
 # 0.1.0 2024-06-10
 
 - Initial production-ready version.

docs/Makefile

@@ -24,6 +24,7 @@ dist: ${CASTS}
 clean:
 	rm -fR $(BUILDDIR)
 	rm -f _static/*.cast
+	rm sample.vcf.gz*
 
 
 sample.vcf.gz:
@@ -35,12 +36,15 @@ sample.vcf.gz:
 
 _static/vcf2zarr_convert.cast: sample.vcf.gz
 	rm -fR sample.vcz
-	asciinema-automation cast_scripts/vcf2zarr_convert.sh $@
+	asciinema-automation -d cast_scripts/vcf2zarr_convert.sh $@
+	cat _static/vcf2zarr_convert.log
+	asciinema play _static/vcf2zarr_convert.cast 
 	cp -R sample.vcz vcf2zarr
 
 # TODO rename this cast
 _static/vcf2zarr_explode.cast: sample.vcf.gz
 	rm -Rf sample.icf sample.vcz
-	asciinema-automation cast_scripts/vcf2zarr_explode.sh $@
+	asciinema-automation -d cast_scripts/vcf2zarr_explode.sh $@
+	cat _static/vcf2zarr_explode.log
+	asciinema play _static/vcf2zarr_explode.cast 
 	cp -R sample.icf sample.vcz vcf2zarr
-

pyproject.toml

@@ -11,8 +11,8 @@ authors = [
   {name = "sgkit Developers", email = "project@sgkit.dev"},
 ]
 dependencies = [
-  "numpy",
-  "zarr >= 2.17",
+  "numpy < 2",
+  "zarr >= 2.17,< 3",
   "click",
   "tabulate",
   "tqdm",
@@ -60,7 +60,7 @@ dev = [
 ]
 
 [tool.setuptools]
-packages = ["bio2zarr"]
+packages = ["bio2zarr", "bio2zarr.vcf2zarr"]
 
 [tool.setuptools_scm]
 version_file = "bio2zarr/_version.py"