* [meta-python][PATCH] python3-h5py: Upgrade 2.10.0 -> 3.1.0
@ 2021-02-22 17:15 Leon Anavi
2021-02-24 14:39 ` [oe] " Trevor Gamblin
0 siblings, 1 reply; 2+ messages in thread
From: Leon Anavi @ 2021-02-22 17:15 UTC (permalink / raw)
To: openembedded-devel; +Cc: Leon Anavi
Upgrade to release 3.1.0:
- Fix using bytes as names for :meth:`~Group.create_dataset` and
 :meth:`~Group.create_virtual_dataset`.
- Fix writing data as a list to a dataset with a sub-array data
type.
- Preserve endianess in Cython dataset Reader
- If pytest is missing pytest-mpi then it will now fail
immediately with a clear warning message
- Fix a test which was failing on big-endian systems
Signed-off-by: Leon Anavi <leon.anavi@konsulko.com>
---
.../0001-cross-compiling-support.patch | 47 -------------------
.../0001-setup.py-Fix-numpy-version.patch | 28 +++++++++++
...1-setup_build.py-avoid-absolute-path.patch | 15 +++---
...3-h5py_2.10.0.bb => python3-h5py_3.1.0.bb} | 5 +-
4 files changed, 37 insertions(+), 58 deletions(-)
delete mode 100644 meta-python/recipes-devtools/python/python3-h5py/0001-cross-compiling-support.patch
create mode 100644 meta-python/recipes-devtools/python/python3-h5py/0001-setup.py-Fix-numpy-version.patch
rename meta-python/recipes-devtools/python/{python3-h5py_2.10.0.bb => python3-h5py_3.1.0.bb} (78%)
diff --git a/meta-python/recipes-devtools/python/python3-h5py/0001-cross-compiling-support.patch b/meta-python/recipes-devtools/python/python3-h5py/0001-cross-compiling-support.patch
deleted file mode 100644
index 8c0b914326..0000000000
--- a/meta-python/recipes-devtools/python/python3-h5py/0001-cross-compiling-support.patch
+++ /dev/null
@@ -1,47 +0,0 @@
-From 364fd0906efa349ea44a761820408dcf6b2b8726 Mon Sep 17 00:00:00 2001
-From: Hongxu Jia <hongxu.jia@windriver.com>
-Date: Tue, 29 Jan 2019 17:08:32 +0800
-Subject: [PATCH] cross compiling support
-
-Remove useless dirs
-
-Upstream-Status: Inappropriate [oe specific]
-
-Signed-off-by: Hongxu Jia <hongxu.jia@windriver.com>
-Signed-off-by: Leon Anavi <leon.anavi@konsulko.com>
----
- setup_build.py | 4 ----
- setup_configure.py | 2 +-
- 2 files changed, 1 insertion(+), 5 deletions(-)
-
-diff --git a/setup_build.py b/setup_build.py
-index c0e9a28c..ffd3bef7 100644
---- a/setup_build.py
-+++ b/setup_build.py
-@@ -55,10 +55,6 @@ if sys.platform.startswith('win'):
- ('_HDF5USEDLL_', None),
- ('H5_BUILT_AS_DYNAMIC_LIB', None)
- ])
--else:
-- FALLBACK_PATHS['include_dirs'].extend(['/opt/local/include', '/usr/local/include'])
-- FALLBACK_PATHS['library_dirs'].extend(['/opt/local/lib', '/usr/local/lib'])
--
-
- class h5py_build_ext(build_ext):
-
-diff --git a/setup_configure.py b/setup_configure.py
-index 5576775e..75f4141e 100644
---- a/setup_configure.py
-+++ b/setup_configure.py
-@@ -206,7 +206,7 @@ def autodetect_version(hdf5_dir=None):
- default_path = 'libhdf5.so'
- regexp = re.compile(r'^libhdf5.so')
-
-- libdirs = ['/usr/local/lib', '/opt/local/lib']
-+ libdirs = []
- try:
- if pkgconfig.exists("hdf5"):
- libdirs.extend(pkgconfig.parse("hdf5")['library_dirs'])
---
-2.17.1
-
diff --git a/meta-python/recipes-devtools/python/python3-h5py/0001-setup.py-Fix-numpy-version.patch b/meta-python/recipes-devtools/python/python3-h5py/0001-setup.py-Fix-numpy-version.patch
new file mode 100644
index 0000000000..4881b023c8
--- /dev/null
+++ b/meta-python/recipes-devtools/python/python3-h5py/0001-setup.py-Fix-numpy-version.patch
@@ -0,0 +1,28 @@
+From e6c0d487fb5e6063305b8b3187896fbfe5720ed2 Mon Sep 17 00:00:00 2001
+From: Leon Anavi <leon.anavi@konsulko.com>
+Date: Mon, 22 Feb 2021 18:42:43 +0200
+Subject: [PATCH] setup.py: Fix numpy version
+
+Fix numpy version to ensure bitbake will find the pip package.
+
+Upstream-Status: Inappropriate [oe specific]
+
+Signed-off-by: Leon Anavi <leon.anavi@konsulko.com>
+
+---
+ setup.py | 2 +-
+ 1 file changed, 1 insertion(+), 1 deletion(-)
+
+diff --git a/setup.py b/setup.py
+index 7dbe583..6602c97 100755
+--- a/setup.py
++++ b/setup.py
+@@ -49,7 +49,7 @@ SETUP_REQUIRES = [
+ f"Cython >=0.29; python_version<'3.8'",
+ f"Cython >=0.29.14; python_version>='3.8'",
+ ] + [
+- f"numpy =={np_min}; python_version{py_condition}"
++ f"numpy >={np_min}; python_version{py_condition}"
+ for np_min, py_condition in NUMPY_MIN_VERSIONS
+ ]
+
diff --git a/meta-python/recipes-devtools/python/python3-h5py/0001-setup_build.py-avoid-absolute-path.patch b/meta-python/recipes-devtools/python/python3-h5py/0001-setup_build.py-avoid-absolute-path.patch
index da95ee7af5..d0c2ece19b 100644
--- a/meta-python/recipes-devtools/python/python3-h5py/0001-setup_build.py-avoid-absolute-path.patch
+++ b/meta-python/recipes-devtools/python/python3-h5py/0001-setup_build.py-avoid-absolute-path.patch
@@ -1,6 +1,6 @@
-From b5d5a7efc7aaa2be830731001ed17c5b71bcefb1 Mon Sep 17 00:00:00 2001
+From 1a46082d0889a784037952c4da0cde3822849032 Mon Sep 17 00:00:00 2001
From: Mingli Yu <mingli.yu@windriver.com>
-Date: Fri, 29 Jan 2021 02:33:06 +0000
+Date: Thu, 28 Jan 2021 18:44:10 -0800
Subject: [PATCH] setup_build.py: avoid absolute path
Prevent absolute path from ending up in the egg-info SOURCES.txt.
@@ -8,15 +8,17 @@ Prevent absolute path from ending up in the egg-info SOURCES.txt.
Upstream-Status: Submitted [https://github.com/h5py/h5py/pull/1803]
Signed-off-by: Mingli Yu <mingli.yu@windriver.com>
+Signed-off-by: Leon Anavi <leon.anavi@konsulko.com>
+
---
setup_build.py | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/setup_build.py b/setup_build.py
-index ffd3bef..fb196c0 100644
+index 3c7c7ad..d824bdd 100644
--- a/setup_build.py
+++ b/setup_build.py
-@@ -20,7 +20,7 @@ import api_gen
+@@ -21,7 +21,7 @@ from setup_configure import BuildConfig
def localpath(*args):
@@ -24,7 +26,4 @@ index ffd3bef..fb196c0 100644
+ return op.join(*args)
- MODULES = ['defs','_errors','_objects','_proxy', 'h5fd', 'h5z',
---
-2.29.2
-
+ MODULES = ['defs', '_errors', '_objects', '_proxy', 'h5fd', 'h5z',
diff --git a/meta-python/recipes-devtools/python/python3-h5py_2.10.0.bb b/meta-python/recipes-devtools/python/python3-h5py_3.1.0.bb
similarity index 78%
rename from meta-python/recipes-devtools/python/python3-h5py_2.10.0.bb
rename to meta-python/recipes-devtools/python/python3-h5py_3.1.0.bb
index b812b323fa..03ae4c9db4 100644
--- a/meta-python/recipes-devtools/python/python3-h5py_2.10.0.bb
+++ b/meta-python/recipes-devtools/python/python3-h5py_3.1.0.bb
@@ -4,12 +4,11 @@ SECTION = "devel/python"
LICENSE = "BSD-3-Clause"
LIC_FILES_CHKSUM = "file://LICENSE;md5=113251d71fb0384712c719b567261c5c"
-SRC_URI[md5sum] = "504b595237409ab766fbbe568e60a080"
-SRC_URI[sha256sum] = "84412798925dc870ffd7107f045d7659e60f5d46d1c70c700375248bf6bf512d"
+SRC_URI[sha256sum] = "1e2516f190652beedcb8c7acfa1c6fa92d99b42331cbef5e5c7ec2d65b0fc3c2"
SRC_URI_append = " \
- file://0001-cross-compiling-support.patch \
file://0001-setup_build.py-avoid-absolute-path.patch \
+ file://0001-setup.py-Fix-numpy-version.patch \
"
inherit pypi setuptools3
--
2.17.1
^ permalink raw reply related [flat|nested] 2+ messages in thread
* Re: [oe] [meta-python][PATCH] python3-h5py: Upgrade 2.10.0 -> 3.1.0
2021-02-22 17:15 [meta-python][PATCH] python3-h5py: Upgrade 2.10.0 -> 3.1.0 Leon Anavi
@ 2021-02-24 14:39 ` Trevor Gamblin
0 siblings, 0 replies; 2+ messages in thread
From: Trevor Gamblin @ 2021-02-24 14:39 UTC (permalink / raw)
To: Leon Anavi, openembedded-devel
[-- Attachment #1: Type: text/plain, Size: 7622 bytes --]
On 2021-02-22 12:15 p.m., Leon Anavi wrote:
> [Please note: This e-mail is from an EXTERNAL e-mail address]
>
> Upgrade to release 3.1.0:
>
> - Fix using bytes as names for :meth:`~Group.create_dataset` and
>  :meth:`~Group.create_virtual_dataset`.
> - Fix writing data as a list to a dataset with a sub-array data
> type.
> - Preserve endianess in Cython dataset Reader
> - If pytest is missing pytest-mpi then it will now fail
> immediately with a clear warning message
> - Fix a test which was failing on big-endian systems
>
> Signed-off-by: Leon Anavi <leon.anavi@konsulko.com>
Acked-by: Trevor Gamblin <trevor.gamblin@windriver.com>
> ---
> .../0001-cross-compiling-support.patch | 47 -------------------
> .../0001-setup.py-Fix-numpy-version.patch | 28 +++++++++++
> ...1-setup_build.py-avoid-absolute-path.patch | 15 +++---
> ...3-h5py_2.10.0.bb => python3-h5py_3.1.0.bb} | 5 +-
> 4 files changed, 37 insertions(+), 58 deletions(-)
> delete mode 100644 meta-python/recipes-devtools/python/python3-h5py/0001-cross-compiling-support.patch
> create mode 100644 meta-python/recipes-devtools/python/python3-h5py/0001-setup.py-Fix-numpy-version.patch
> rename meta-python/recipes-devtools/python/{python3-h5py_2.10.0.bb => python3-h5py_3.1.0.bb} (78%)
>
> diff --git a/meta-python/recipes-devtools/python/python3-h5py/0001-cross-compiling-support.patch b/meta-python/recipes-devtools/python/python3-h5py/0001-cross-compiling-support.patch
> deleted file mode 100644
> index 8c0b914326..0000000000
> --- a/meta-python/recipes-devtools/python/python3-h5py/0001-cross-compiling-support.patch
> +++ /dev/null
> @@ -1,47 +0,0 @@
> -From 364fd0906efa349ea44a761820408dcf6b2b8726 Mon Sep 17 00:00:00 2001
> -From: Hongxu Jia <hongxu.jia@windriver.com>
> -Date: Tue, 29 Jan 2019 17:08:32 +0800
> -Subject: [PATCH] cross compiling support
> -
> -Remove useless dirs
> -
> -Upstream-Status: Inappropriate [oe specific]
> -
> -Signed-off-by: Hongxu Jia <hongxu.jia@windriver.com>
> -Signed-off-by: Leon Anavi <leon.anavi@konsulko.com>
> ----
> - setup_build.py | 4 ----
> - setup_configure.py | 2 +-
> - 2 files changed, 1 insertion(+), 5 deletions(-)
> -
> -diff --git a/setup_build.py b/setup_build.py
> -index c0e9a28c..ffd3bef7 100644
> ---- a/setup_build.py
> -+++ b/setup_build.py
> -@@ -55,10 +55,6 @@ if sys.platform.startswith('win'):
> - ('_HDF5USEDLL_', None),
> - ('H5_BUILT_AS_DYNAMIC_LIB', None)
> - ])
> --else:
> -- FALLBACK_PATHS['include_dirs'].extend(['/opt/local/include', '/usr/local/include'])
> -- FALLBACK_PATHS['library_dirs'].extend(['/opt/local/lib', '/usr/local/lib'])
> --
> -
> - class h5py_build_ext(build_ext):
> -
> -diff --git a/setup_configure.py b/setup_configure.py
> -index 5576775e..75f4141e 100644
> ---- a/setup_configure.py
> -+++ b/setup_configure.py
> -@@ -206,7 +206,7 @@ def autodetect_version(hdf5_dir=None):
> - default_path = 'libhdf5.so'
> - regexp = re.compile(r'^libhdf5.so')
> -
> -- libdirs = ['/usr/local/lib', '/opt/local/lib']
> -+ libdirs = []
> - try:
> - if pkgconfig.exists("hdf5"):
> - libdirs.extend(pkgconfig.parse("hdf5")['library_dirs'])
> ---
> -2.17.1
> -
> diff --git a/meta-python/recipes-devtools/python/python3-h5py/0001-setup.py-Fix-numpy-version.patch b/meta-python/recipes-devtools/python/python3-h5py/0001-setup.py-Fix-numpy-version.patch
> new file mode 100644
> index 0000000000..4881b023c8
> --- /dev/null
> +++ b/meta-python/recipes-devtools/python/python3-h5py/0001-setup.py-Fix-numpy-version.patch
> @@ -0,0 +1,28 @@
> +From e6c0d487fb5e6063305b8b3187896fbfe5720ed2 Mon Sep 17 00:00:00 2001
> +From: Leon Anavi <leon.anavi@konsulko.com>
> +Date: Mon, 22 Feb 2021 18:42:43 +0200
> +Subject: [PATCH] setup.py: Fix numpy version
> +
> +Fix numpy version to ensure bitbake will find the pip package.
> +
> +Upstream-Status: Inappropriate [oe specific]
> +
> +Signed-off-by: Leon Anavi <leon.anavi@konsulko.com>
> +
> +---
> + setup.py | 2 +-
> + 1 file changed, 1 insertion(+), 1 deletion(-)
> +
> +diff --git a/setup.py b/setup.py
> +index 7dbe583..6602c97 100755
> +--- a/setup.py
> ++++ b/setup.py
> +@@ -49,7 +49,7 @@ SETUP_REQUIRES = [
> + f"Cython >=0.29; python_version<'3.8'",
> + f"Cython >=0.29.14; python_version>='3.8'",
> + ] + [
> +- f"numpy =={np_min}; python_version{py_condition}"
> ++ f"numpy >={np_min}; python_version{py_condition}"
> + for np_min, py_condition in NUMPY_MIN_VERSIONS
> + ]
> +
> diff --git a/meta-python/recipes-devtools/python/python3-h5py/0001-setup_build.py-avoid-absolute-path.patch b/meta-python/recipes-devtools/python/python3-h5py/0001-setup_build.py-avoid-absolute-path.patch
> index da95ee7af5..d0c2ece19b 100644
> --- a/meta-python/recipes-devtools/python/python3-h5py/0001-setup_build.py-avoid-absolute-path.patch
> +++ b/meta-python/recipes-devtools/python/python3-h5py/0001-setup_build.py-avoid-absolute-path.patch
> @@ -1,6 +1,6 @@
> -From b5d5a7efc7aaa2be830731001ed17c5b71bcefb1 Mon Sep 17 00:00:00 2001
> +From 1a46082d0889a784037952c4da0cde3822849032 Mon Sep 17 00:00:00 2001
> From: Mingli Yu <mingli.yu@windriver.com>
> -Date: Fri, 29 Jan 2021 02:33:06 +0000
> +Date: Thu, 28 Jan 2021 18:44:10 -0800
> Subject: [PATCH] setup_build.py: avoid absolute path
>
> Prevent absolute path from ending up in the egg-info SOURCES.txt.
> @@ -8,15 +8,17 @@ Prevent absolute path from ending up in the egg-info SOURCES.txt.
> Upstream-Status: Submitted [https://github.com/h5py/h5py/pull/1803]
>
> Signed-off-by: Mingli Yu <mingli.yu@windriver.com>
> +Signed-off-by: Leon Anavi <leon.anavi@konsulko.com>
> +
> ---
> setup_build.py | 2 +-
> 1 file changed, 1 insertion(+), 1 deletion(-)
>
> diff --git a/setup_build.py b/setup_build.py
> -index ffd3bef..fb196c0 100644
> +index 3c7c7ad..d824bdd 100644
> --- a/setup_build.py
> +++ b/setup_build.py
> -@@ -20,7 +20,7 @@ import api_gen
> +@@ -21,7 +21,7 @@ from setup_configure import BuildConfig
>
>
> def localpath(*args):
> @@ -24,7 +26,4 @@ index ffd3bef..fb196c0 100644
> + return op.join(*args)
>
>
> - MODULES = ['defs','_errors','_objects','_proxy', 'h5fd', 'h5z',
> ---
> -2.29.2
> -
> + MODULES = ['defs', '_errors', '_objects', '_proxy', 'h5fd', 'h5z',
> diff --git a/meta-python/recipes-devtools/python/python3-h5py_2.10.0.bb b/meta-python/recipes-devtools/python/python3-h5py_3.1.0.bb
> similarity index 78%
> rename from meta-python/recipes-devtools/python/python3-h5py_2.10.0.bb
> rename to meta-python/recipes-devtools/python/python3-h5py_3.1.0.bb
> index b812b323fa..03ae4c9db4 100644
> --- a/meta-python/recipes-devtools/python/python3-h5py_2.10.0.bb
> +++ b/meta-python/recipes-devtools/python/python3-h5py_3.1.0.bb
> @@ -4,12 +4,11 @@ SECTION = "devel/python"
> LICENSE = "BSD-3-Clause"
> LIC_FILES_CHKSUM = "file://LICENSE;md5=113251d71fb0384712c719b567261c5c"
>
> -SRC_URI[md5sum] = "504b595237409ab766fbbe568e60a080"
> -SRC_URI[sha256sum] = "84412798925dc870ffd7107f045d7659e60f5d46d1c70c700375248bf6bf512d"
> +SRC_URI[sha256sum] = "1e2516f190652beedcb8c7acfa1c6fa92d99b42331cbef5e5c7ec2d65b0fc3c2"
>
> SRC_URI_append = " \
> - file://0001-cross-compiling-support.patch \
> file://0001-setup_build.py-avoid-absolute-path.patch \
> + file://0001-setup.py-Fix-numpy-version.patch \
> "
>
> inherit pypi setuptools3
> --
> 2.17.1
>
>
>
>
[-- Attachment #2: Type: text/html, Size: 9303 bytes --]
^ permalink raw reply [flat|nested] 2+ messages in thread
end of thread, other threads:[~2021-02-24 14:40 UTC | newest]
Thread overview: 2+ messages (download: mbox.gz / follow: Atom feed)
-- links below jump to the message on this page --
2021-02-22 17:15 [meta-python][PATCH] python3-h5py: Upgrade 2.10.0 -> 3.1.0 Leon Anavi
2021-02-24 14:39 ` [oe] " Trevor Gamblin
This is an external index of several public inboxes,
see mirroring instructions on how to clone and mirror
all data and code used by this external index.