* [PR PATCH] arpack-ng: update to 3.9.0.
@ 2023-07-01 21:04 tornaria
2023-07-02 14:47 ` [PR PATCH] [Merged]: " Duncaen
0 siblings, 1 reply; 2+ messages in thread
From: tornaria @ 2023-07-01 21:04 UTC (permalink / raw)
To: ml
[-- Attachment #1: Type: text/plain, Size: 1614 bytes --]
There is a new pull request by tornaria against master on the void-packages repository
https://github.com/tornaria/void-packages arpack
https://github.com/void-linux/void-packages/pull/44776
arpack-ng: update to 3.9.0.
<!-- Uncomment relevant sections and delete options which are not applicable -->
#### Testing the changes
- I tested the changes in this PR: **briefly**
The update was masked since it caused test failures in igraph (https://github.com/igraph/igraph/issues/2311 and https://github.com/opencollab/arpack-ng/issues/401).
Since then a PR fixing the issues has been proposed at https://github.com/opencollab/arpack-ng/pull/414 (that's the added `b3fe4ad7.patch` here).
I've checked the test suite of igraph now passes.
<!--
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- I built this PR locally for these architectures (if supported. mark crossbuilds):
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- armv6l-musl
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A patch file from https://github.com/void-linux/void-packages/pull/44776.patch is attached
[-- Warning: decoded text below may be mangled, UTF-8 assumed --]
[-- Attachment #2: github-pr-arpack-44776.patch --]
[-- Type: text/x-diff, Size: 18417 bytes --]
From 8ef9d5d36c2930159d0368ac44067efbb30d4c45 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Gonzalo=20Tornar=C3=ADa?= <tornaria@cmat.edu.uy>
Date: Mon, 3 Apr 2023 19:13:48 -0300
Subject: [PATCH] arpack-ng: update to 3.9.0.
---
srcpkgs/arpack-ng/patches/b3fe4ad7.patch | 518 +++++++++++++++++++++++
srcpkgs/arpack-ng/template | 7 +-
srcpkgs/arpack-ng/update | 4 -
3 files changed, 521 insertions(+), 8 deletions(-)
create mode 100644 srcpkgs/arpack-ng/patches/b3fe4ad7.patch
delete mode 100644 srcpkgs/arpack-ng/update
diff --git a/srcpkgs/arpack-ng/patches/b3fe4ad7.patch b/srcpkgs/arpack-ng/patches/b3fe4ad7.patch
new file mode 100644
index 000000000000..b3ba91397ec4
--- /dev/null
+++ b/srcpkgs/arpack-ng/patches/b3fe4ad7.patch
@@ -0,0 +1,518 @@
+From b3fe4ad7fa875d192071972ee8523cbc149e8221 Mon Sep 17 00:00:00 2001
+From: =?UTF-8?q?Szabolcs=20Horva=CC=81t?= <szhorvat@gmail.com>
+Date: Sun, 9 Apr 2023 16:36:35 +0200
+Subject: [PATCH] fix: ensure that LAPACK RNG state is propagated
+
+ - fixes #401, #410, #411
+ - restores 'inits' variable removed in ce2e69a849da1d10dad5d6d3ec4db6120b3ecf50, ensuring that the RNG state is propagated
+ - reverts e0d67054f573da351f12a226f7c7cc65a690ef3d to ensure that seed is different on each parallel thread
+ - updates seed initialization of parallel pdgetv0/psgetv0 so that they match that of pzgetv0/pcgetv0
+---
+ PARPACK/SRC/MPI/pcgetv0.f | 48 +++++++++++++++++++++++----------------
+ PARPACK/SRC/MPI/pdgetv0.f | 40 ++++++++++++++++++++++++++------
+ PARPACK/SRC/MPI/psgetv0.f | 43 ++++++++++++++++++++++++++---------
+ PARPACK/SRC/MPI/pzgetv0.f | 48 +++++++++++++++++++++++----------------
+ SRC/cgetv0.f | 21 ++++++++++++-----
+ SRC/dgetv0.f | 21 ++++++++++++-----
+ SRC/sgetv0.f | 21 ++++++++++++-----
+ SRC/zgetv0.f | 21 ++++++++++++-----
+ 8 files changed, 183 insertions(+), 80 deletions(-)
+
+diff --git a/PARPACK/SRC/MPI/pcgetv0.f b/PARPACK/SRC/MPI/pcgetv0.f
+index 59e3d1658..24fe8a0f1 100644
+--- a/PARPACK/SRC/MPI/pcgetv0.f
++++ b/PARPACK/SRC/MPI/pcgetv0.f
+@@ -176,13 +176,13 @@ subroutine pcgetv0
+ c | Local Scalars & Arrays |
+ c %------------------------%
+ c
+- logical first, orth
++ logical first, inits, orth
+ integer idist, iseed(4), iter, msglvl, jj, myid, igen
+ Real
+ & rnorm0
+ Complex
+ & cnorm, cnorm2
+- save first, iseed, iter, msglvl, orth, rnorm0
++ save first, iseed, inits, iter, msglvl, orth, rnorm0
+ c
+ Complex
+ & cnorm_buf, buf2(1)
+@@ -203,6 +203,12 @@ subroutine pcgetv0
+ & ccdotc
+ external ccdotc, pscnorm2, slapy2
+ c
++c %-----------------%
++c | Data Statements |
++c %-----------------%
++c
++ data inits /.true./
++c
+ c %-----------------------%
+ c | Executable Statements |
+ c %-----------------------%
+@@ -213,26 +219,30 @@ subroutine pcgetv0
+ c | random number generator |
+ c %-----------------------------------%
+ c
++ if (inits) then
+ c
+-c %-----------------------------------%
+-c | Generate a seed on each processor |
+-c | using process id (myid). |
+-c | Note: the seed must be between 1 |
+-c | and 4095. iseed(4) must be odd. |
+-c %-----------------------------------%
++c %-----------------------------------%
++c | Generate a seed on each processor |
++c | using process id (myid). |
++c | Note: the seed must be between 1 |
++c | and 4095. iseed(4) must be odd. |
++c %-----------------------------------%
+ c
+- call MPI_COMM_RANK(comm, myid, ierr)
+- igen = 1000 + 2*myid + 1
+- if (igen .gt. 4095) then
+- write(0,*) 'Error in p_getv0: seed exceeds 4095!'
+- end if
++ call MPI_COMM_RANK(comm, myid, ierr)
++ igen = 1000 + 2*myid + 1
++ if (igen .gt. 4095) then
++ write(0,*) 'Error in p_getv0: seed exceeds 4095!'
++ end if
++c
++ iseed(1) = igen/1000
++ igen = mod(igen,1000)
++ iseed(2) = igen/100
++ igen = mod(igen,100)
++ iseed(3) = igen/10
++ iseed(4) = mod(igen,10)
+ c
+- iseed(1) = igen/1000
+- igen = mod(igen,1000)
+- iseed(2) = igen/100
+- igen = mod(igen,100)
+- iseed(3) = igen/10
+- iseed(4) = 7
++ inits = .false.
++ end if
+ c
+ if (ido .eq. 0) then
+ c
+diff --git a/PARPACK/SRC/MPI/pdgetv0.f b/PARPACK/SRC/MPI/pdgetv0.f
+index 0f348b820..5a1956997 100644
+--- a/PARPACK/SRC/MPI/pdgetv0.f
++++ b/PARPACK/SRC/MPI/pdgetv0.f
+@@ -177,11 +177,11 @@ subroutine pdgetv0
+ c | Local Scalars & Arrays |
+ c %------------------------%
+ c
+- logical first, orth
+- integer idist, iseed(4), iter, msglvl, jj
++ logical first, inits, orth
++ integer idist, iseed(4), iter, msglvl, jj, myid, igen
+ Double precision
+ & rnorm0, buf2(1)
+- save first, iseed, iter, msglvl, orth, rnorm0
++ save first, iseed, inits, iter, msglvl, orth, rnorm0
+ c
+ Double precision
+ & rnorm_buf
+@@ -206,6 +206,12 @@ subroutine pdgetv0
+ c
+ intrinsic abs, sqrt
+ c
++c %-----------------%
++c | Data Statements |
++c %-----------------%
++c
++ data inits /.true./
++c
+ c %-----------------------%
+ c | Executable Statements |
+ c %-----------------------%
+@@ -216,10 +222,30 @@ subroutine pdgetv0
+ c | random number generator |
+ c %-----------------------------------%
+ c
+- iseed(1) = 1
+- iseed(2) = 3
+- iseed(3) = 5
+- iseed(4) = 7
++ if (inits) then
++c
++c %-----------------------------------%
++c | Generate a seed on each processor |
++c | using process id (myid). |
++c | Note: the seed must be between 1 |
++c | and 4095. iseed(4) must be odd. |
++c %-----------------------------------%
++c
++ call MPI_COMM_RANK(comm, myid, ierr)
++ igen = 1000 + 2*myid + 1
++ if (igen .gt. 4095) then
++ write(0,*) 'Error in p_getv0: seed exceeds 4095!'
++ end if
++c
++ iseed(1) = igen/1000
++ igen = mod(igen,1000)
++ iseed(2) = igen/100
++ igen = mod(igen,100)
++ iseed(3) = igen/10
++ iseed(4) = mod(igen,10)
++c
++ inits = .false.
++ end if
+ c
+ if (ido .eq. 0) then
+ c
+diff --git a/PARPACK/SRC/MPI/psgetv0.f b/PARPACK/SRC/MPI/psgetv0.f
+index d79a513b2..078e4fa8c 100644
+--- a/PARPACK/SRC/MPI/psgetv0.f
++++ b/PARPACK/SRC/MPI/psgetv0.f
+@@ -177,11 +177,11 @@ subroutine psgetv0
+ c | Local Scalars & Arrays |
+ c %------------------------%
+ c
+- logical first, orth
+- integer idist, iseed(4), iter, msglvl, jj
++ logical first, inits, orth
++ integer idist, iseed(4), iter, msglvl, jj, myid, igen
+ Real
+ & rnorm0
+- save first, iseed, iter, msglvl, orth, rnorm0
++ save first, iseed, inits, iter, msglvl, orth, rnorm0
+ c
+ Real
+ & rnorm_buf
+@@ -206,20 +206,41 @@ subroutine psgetv0
+ c
+ intrinsic abs, sqrt
+ c
++c %-----------------%
++c | Data Statements |
++c %-----------------%
++c
++ data inits /.true./
++c
+ c %-----------------------%
+ c | Executable Statements |
+ c %-----------------------%
+ c
+ c
+-c %-----------------------------------%
+-c | Initialize the seed of the LAPACK |
+-c | random number generator |
+-c %-----------------------------------%
++ if (inits) then
+ c
+- iseed(1) = 1
+- iseed(2) = 3
+- iseed(3) = 5
+- iseed(4) = 7
++c %-----------------------------------%
++c | Generate a seed on each processor |
++c | using process id (myid). |
++c | Note: the seed must be between 1 |
++c | and 4095. iseed(4) must be odd. |
++c %-----------------------------------%
++c
++ call MPI_COMM_RANK(comm, myid, ierr)
++ igen = 1000 + 2*myid + 1
++ if (igen .gt. 4095) then
++ write(0,*) 'Error in p_getv0: seed exceeds 4095!'
++ end if
++c
++ iseed(1) = igen/1000
++ igen = mod(igen,1000)
++ iseed(2) = igen/100
++ igen = mod(igen,100)
++ iseed(3) = igen/10
++ iseed(4) = mod(igen,10)
++c
++ inits = .false.
++ end if
+ c
+ if (ido .eq. 0) then
+ c
+diff --git a/PARPACK/SRC/MPI/pzgetv0.f b/PARPACK/SRC/MPI/pzgetv0.f
+index 731fb319f..94fb705f3 100644
+--- a/PARPACK/SRC/MPI/pzgetv0.f
++++ b/PARPACK/SRC/MPI/pzgetv0.f
+@@ -176,13 +176,13 @@ subroutine pzgetv0
+ c | Local Scalars & Arrays |
+ c %------------------------%
+ c
+- logical first, orth
++ logical first, inits, orth
+ integer idist, iseed(4), iter, msglvl, jj, myid, igen
+ Double precision
+ & rnorm0
+ Complex*16
+ & cnorm, cnorm2
+- save first, iseed, iter, msglvl, orth, rnorm0
++ save first, iseed, inits, iter, msglvl, orth, rnorm0
+ c
+ Complex*16
+ & cnorm_buf, buf2(1)
+@@ -203,6 +203,12 @@ subroutine pzgetv0
+ & zzdotc
+ external zzdotc , pdznorm2 , dlapy2
+ c
++c %-----------------%
++c | Data Statements |
++c %-----------------%
++c
++ data inits /.true./
++c
+ c %-----------------------%
+ c | Executable Statements |
+ c %-----------------------%
+@@ -213,26 +219,30 @@ subroutine pzgetv0
+ c | random number generator |
+ c %-----------------------------------%
+ c
++ if (inits) then
+ c
+-c %-----------------------------------%
+-c | Generate a seed on each processor |
+-c | using process id (myid). |
+-c | Note: the seed must be between 1 |
+-c | and 4095. iseed(4) must be odd. |
+-c %-----------------------------------%
++c %-----------------------------------%
++c | Generate a seed on each processor |
++c | using process id (myid). |
++c | Note: the seed must be between 1 |
++c | and 4095. iseed(4) must be odd. |
++c %-----------------------------------%
+ c
+- call MPI_COMM_RANK(comm, myid, ierr)
+- igen = 1000 + 2*myid + 1
+- if (igen .gt. 4095) then
+- write(0,*) 'Error in p_getv0: seed exceeds 4095!'
+- end if
++ call MPI_COMM_RANK(comm, myid, ierr)
++ igen = 1000 + 2*myid + 1
++ if (igen .gt. 4095) then
++ write(0,*) 'Error in p_getv0: seed exceeds 4095!'
++ end if
++c
++ iseed(1) = igen/1000
++ igen = mod(igen,1000)
++ iseed(2) = igen/100
++ igen = mod(igen,100)
++ iseed(3) = igen/10
++ iseed(4) = mod(igen,10)
+ c
+- iseed(1) = igen/1000
+- igen = mod(igen,1000)
+- iseed(2) = igen/100
+- igen = mod(igen,100)
+- iseed(3) = igen/10
+- iseed(4) = 7
++ inits = .false.
++ end if
+ c
+ if (ido .eq. 0) then
+ c
+diff --git a/SRC/cgetv0.f b/SRC/cgetv0.f
+index b49e66708..c231eadcb 100644
+--- a/SRC/cgetv0.f
++++ b/SRC/cgetv0.f
+@@ -156,13 +156,13 @@ subroutine cgetv0
+ c | Local Scalars & Arrays |
+ c %------------------------%
+ c
+- logical first, orth
++ logical first, inits, orth
+ integer idist, iseed(4), iter, msglvl, jj
+ Real
+ & rnorm0
+ Complex
+ & cnorm
+- save first, iseed, iter, msglvl, orth, rnorm0
++ save first, iseed, inits, iter, msglvl, orth, rnorm0
+ c
+ c %----------------------%
+ c | External Subroutines |
+@@ -180,6 +180,12 @@ subroutine cgetv0
+ & ccdotc
+ external ccdotc, scnrm2, slapy2
+ c
++c %-----------------%
++c | Data Statements |
++c %-----------------%
++c
++ data inits /.true./
++c
+ c %-----------------------%
+ c | Executable Statements |
+ c %-----------------------%
+@@ -190,10 +196,13 @@ subroutine cgetv0
+ c | random number generator |
+ c %-----------------------------------%
+ c
+- iseed(1) = 1
+- iseed(2) = 3
+- iseed(3) = 5
+- iseed(4) = 7
++ if (inits) then
++ iseed(1) = 1
++ iseed(2) = 3
++ iseed(3) = 5
++ iseed(4) = 7
++ inits = .false.
++ end if
+ c
+ if (ido .eq. 0) then
+ c
+diff --git a/SRC/dgetv0.f b/SRC/dgetv0.f
+index 8be4fa26d..1d6dc01bd 100644
+--- a/SRC/dgetv0.f
++++ b/SRC/dgetv0.f
+@@ -157,11 +157,11 @@ subroutine dgetv0
+ c | Local Scalars & Arrays |
+ c %------------------------%
+ c
+- logical first, orth
++ logical first, inits, orth
+ integer idist, iseed(4), iter, msglvl, jj
+ Double precision
+ & rnorm0
+- save first, iseed, iter, msglvl, orth, rnorm0
++ save first, iseed, inits, iter, msglvl, orth, rnorm0
+ c
+ c %----------------------%
+ c | External Subroutines |
+@@ -183,6 +183,12 @@ subroutine dgetv0
+ c
+ intrinsic abs, sqrt
+ c
++c %-----------------%
++c | Data Statements |
++c %-----------------%
++c
++ data inits /.true./
++c
+ c %-----------------------%
+ c | Executable Statements |
+ c %-----------------------%
+@@ -193,10 +199,13 @@ subroutine dgetv0
+ c | random number generator |
+ c %-----------------------------------%
+ c
+- iseed(1) = 1
+- iseed(2) = 3
+- iseed(3) = 5
+- iseed(4) = 7
++ if (inits) then
++ iseed(1) = 1
++ iseed(2) = 3
++ iseed(3) = 5
++ iseed(4) = 7
++ inits = .false.
++ end if
+ c
+ if (ido .eq. 0) then
+ c
+diff --git a/SRC/sgetv0.f b/SRC/sgetv0.f
+index 26130a014..d861b2d6d 100644
+--- a/SRC/sgetv0.f
++++ b/SRC/sgetv0.f
+@@ -157,11 +157,11 @@ subroutine sgetv0
+ c | Local Scalars & Arrays |
+ c %------------------------%
+ c
+- logical first, orth
++ logical first, inits, orth
+ integer idist, iseed(4), iter, msglvl, jj
+ Real
+ & rnorm0
+- save first, iseed, iter, msglvl, orth, rnorm0
++ save first, iseed, inits, iter, msglvl, orth, rnorm0
+ c
+ c %----------------------%
+ c | External Subroutines |
+@@ -183,6 +183,12 @@ subroutine sgetv0
+ c
+ intrinsic abs, sqrt
+ c
++c %-----------------%
++c | Data Statements |
++c %-----------------%
++c
++ data inits /.true./
++c
+ c %-----------------------%
+ c | Executable Statements |
+ c %-----------------------%
+@@ -193,10 +199,13 @@ subroutine sgetv0
+ c | random number generator |
+ c %-----------------------------------%
+ c
+- iseed(1) = 1
+- iseed(2) = 3
+- iseed(3) = 5
+- iseed(4) = 7
++ if (inits) then
++ iseed(1) = 1
++ iseed(2) = 3
++ iseed(3) = 5
++ iseed(4) = 7
++ inits = .false.
++ end if
+ c
+ if (ido .eq. 0) then
+ c
+diff --git a/SRC/zgetv0.f b/SRC/zgetv0.f
+index cc13c3cfb..1fbd50851 100644
+--- a/SRC/zgetv0.f
++++ b/SRC/zgetv0.f
+@@ -156,13 +156,13 @@ subroutine zgetv0
+ c | Local Scalars & Arrays |
+ c %------------------------%
+ c
+- logical first, orth
++ logical first, inits, orth
+ integer idist, iseed(4), iter, msglvl, jj
+ Double precision
+ & rnorm0
+ Complex*16
+ & cnorm
+- save first, iseed, iter, msglvl, orth, rnorm0
++ save first, iseed, inits, iter, msglvl, orth, rnorm0
+ c
+ c %----------------------%
+ c | External Subroutines |
+@@ -180,6 +180,12 @@ subroutine zgetv0
+ & zzdotc
+ external zzdotc, dznrm2, dlapy2
+ c
++c %-----------------%
++c | Data Statements |
++c %-----------------%
++c
++ data inits /.true./
++c
+ c %-----------------------%
+ c | Executable Statements |
+ c %-----------------------%
+@@ -190,10 +196,13 @@ subroutine zgetv0
+ c | random number generator |
+ c %-----------------------------------%
+ c
+- iseed(1) = 1
+- iseed(2) = 3
+- iseed(3) = 5
+- iseed(4) = 7
++ if (inits) then
++ iseed(1) = 1
++ iseed(2) = 3
++ iseed(3) = 5
++ iseed(4) = 7
++ inits = .false.
++ end if
+ c
+ if (ido .eq. 0) then
+ c
diff --git a/srcpkgs/arpack-ng/template b/srcpkgs/arpack-ng/template
index 8a1098a62c39..82940ff2bdf9 100644
--- a/srcpkgs/arpack-ng/template
+++ b/srcpkgs/arpack-ng/template
@@ -1,6 +1,6 @@
# Template file for 'arpack-ng'
pkgname=arpack-ng
-version=3.8.0
+version=3.9.0
revision=1
build_style=gnu-configure
hostmakedepends="automake libtool gcc-fortran pkg-config"
@@ -11,7 +11,7 @@ license="BSD-3-Clause"
homepage="https://github.com/opencollab/arpack-ng"
changelog="https://raw.githubusercontent.com/opencollab/arpack-ng/master/CHANGES"
distfiles="https://github.com/opencollab/arpack-ng/archive/${version}.tar.gz"
-checksum=ada5aeb3878874383307239c9235b716a8a170c6d096a6625bfd529844df003d
+checksum=24f2a2b259992d3c797d80f626878aa8e2ed5009d549dad57854bbcfb95e1ed0
# As of 2021-01-03 arpack-ng is only used by octave which includes openblas as
# its BLAS implementation. So if openblas is available for XBPS_TARGET_MACHINE,
@@ -39,9 +39,8 @@ arpack-ng-devel_package() {
short_desc+=" - development files"
depends="${makedepends} ${sourcepkg}>=${version}_${revision}"
pkg_install() {
- vmove usr/lib/cmake
vmove usr/lib/pkgconfig
- vmove usr/include/arpack
+ vmove usr/include/arpack-ng
vmove "usr/lib/*.so"
}
}
diff --git a/srcpkgs/arpack-ng/update b/srcpkgs/arpack-ng/update
deleted file mode 100644
index b92bf49ef733..000000000000
--- a/srcpkgs/arpack-ng/update
+++ /dev/null
@@ -1,4 +0,0 @@
-# Regression causes failures in igraph. See:
-# https://github.com/igraph/igraph/issues/2311
-# https://github.com/opencollab/arpack-ng/issues/401
-ignore="3.9.0"
^ permalink raw reply [flat|nested] 2+ messages in thread
* Re: [PR PATCH] [Merged]: arpack-ng: update to 3.9.0.
2023-07-01 21:04 [PR PATCH] arpack-ng: update to 3.9.0 tornaria
@ 2023-07-02 14:47 ` Duncaen
0 siblings, 0 replies; 2+ messages in thread
From: Duncaen @ 2023-07-02 14:47 UTC (permalink / raw)
To: ml
[-- Attachment #1: Type: text/plain, Size: 1462 bytes --]
There's a merged pull request on the void-packages repository
arpack-ng: update to 3.9.0.
https://github.com/void-linux/void-packages/pull/44776
Description:
<!-- Uncomment relevant sections and delete options which are not applicable -->
#### Testing the changes
- I tested the changes in this PR: **briefly**
The update was masked since it caused test failures in igraph (https://github.com/igraph/igraph/issues/2311 and https://github.com/opencollab/arpack-ng/issues/401).
Since then a PR fixing the issues has been proposed at https://github.com/opencollab/arpack-ng/pull/414 (that's the added `b3fe4ad7.patch` here).
I've checked the test suite of igraph now passes.
<!--
#### New package
- This new package conforms to the [package requirements](https://github.com/void-linux/void-packages/blob/master/CONTRIBUTING.md#package-requirements): **YES**|**NO**
-->
<!-- Note: If the build is likely to take more than 2 hours, please add ci skip tag as described in
https://github.com/void-linux/void-packages/blob/master/CONTRIBUTING.md#continuous-integration
and test at least one native build and, if supported, at least one cross build.
Ignore this section if this PR is not skipping CI.
-->
<!--
#### Local build testing
- I built this PR locally for my native architecture, (ARCH-LIBC)
- I built this PR locally for these architectures (if supported. mark crossbuilds):
- aarch64-musl
- armv7l
- armv6l-musl
-->
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2023-07-01 21:04 [PR PATCH] arpack-ng: update to 3.9.0 tornaria
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