* [PATCH] Add gctp
@ 2016-06-17 9:29 Thomas Danckaert
0 siblings, 0 replies; 16+ messages in thread
From: Thomas Danckaert @ 2016-06-17 9:29 UTC (permalink / raw)
To: guix-devel
[-- Attachment #1: Type: Text/Plain, Size: 481 bytes --]
Hi guix-devel,
this is a patch to add the GCTP library. It seems the library is no
longer maintained separately (“official” sources are gone), so this
package downloads the HDF-EOS5 source, which contains GCTP, and
patches the build to only build and install GCTP. (I'm packaging
HDF-EOS5 later on)
It's not very elegant... An alternative solution would be to get the
source package from, e.g. Debian, and build that (might involve less
patching).
Thomas
[-- Attachment #2: 0001-gnu-Add-gctp.patch --]
[-- Type: Text/X-Patch, Size: 23330 bytes --]
* gnu/packages/maths.cm (gctp): New variable
* guix/packages.scm (decompression-type): Modify by adding ".Z" suffix
for gzipped files.
* gnu/packages/patches/gct-build-shared.patch: patch build system for
shared builds.
* gnu/packages/patches/gctp-remove-hdf-eos5.patch: don't build the
hdf-eos5 library contained in the same archive.
* gnu/packages/patches/gctp-fix-soname.patch: use a lower case soname.
---
gnu/packages/maths.scm | 39 ++
gnu/packages/patches/gctp-build-shared.patch | 84 +++++
gnu/packages/patches/gctp-fix-soname.patch | 31 ++
gnu/packages/patches/gctp-remove-hdf-eos5.patch | 482 ++++++++++++++++++++++++
guix/packages.scm | 1 +
5 files changed, 637 insertions(+)
create mode 100644 gnu/packages/patches/gctp-build-shared.patch
create mode 100644 gnu/packages/patches/gctp-fix-soname.patch
create mode 100644 gnu/packages/patches/gctp-remove-hdf-eos5.patch
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 3b860a9..9cd0554 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -42,6 +42,8 @@
#:use-module (guix build-system gnu)
#:use-module (guix build-system r)
#:use-module (gnu packages algebra)
+ #:use-module (gnu packages autotools)
+ #:use-module (gnu packages base)
#:use-module (gnu packages bison)
#:use-module (gnu packages boost)
#:use-module (gnu packages check)
@@ -408,6 +410,43 @@ plotting engine by third-party applications like Octave.")
(license (license:fsf-free
"http://gnuplot.cvs.sourceforge.net/gnuplot/gnuplot/Copyright"))))
+(define-public gctp
+ (package
+ (name "gctp")
+ (version "1.0")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append "ftp://edhs1.gsfc.nasa.gov/edhs/hdfeos5/latest_release/HDF-EOS5.1.15.tar.Z"))
+ (sha256
+ (base32
+ "1p83333nzzy8rn5chxlm0hrkjjnhh2w1ji8ac0f9q4xzg838i58i"))
+ (patches (search-patches "gctp-build-shared.patch" "gctp-remove-hdf-eos5.patch" "gctp-fix-soname.patch"))
+ ))
+ (native-inputs
+ `(("autoconf" ,autoconf)
+ ("automake" ,automake)
+ ("libtool" ,libtool)
+ ("coreutils" ,coreutils)))
+ (build-system gnu-build-system)
+ (arguments
+ `(#:configure-flags '("--enable-install-include")
+ #:phases
+ (modify-phases %standard-phases
+ (add-before
+ 'configure 'autogen
+ (lambda _
+ (and (zero? (system* "chmod" "-R" "u+w" ".")) ; archive is read-only...
+ (zero? (system* "autoreconf" "--install")))))))) ; configure.ac was patched
+ (synopsis "General Cartographic Transformation Package (GCTP)")
+ (description
+ "The General Cartographic Transformation Package (GCTP) is a system of
+software routines designed to permit the transformation of coordinate pairs
+from one map projection to another. The GCTP is the standard computer
+software used by the National Mapping Division for map projection
+computations.")
+ (home-page "http://gcmd.nasa.gov/records/USGS-GCTP.html")
+ (license (license:bsd-style "http://gcmd.nasa.gov/records/USGS-GCTP.html"))))
+
(define-public hdf5
(package
(name "hdf5")
diff --git a/gnu/packages/patches/gctp-build-shared.patch b/gnu/packages/patches/gctp-build-shared.patch
new file mode 100644
index 0000000..1139fbb
--- /dev/null
+++ b/gnu/packages/patches/gctp-build-shared.patch
@@ -0,0 +1,84 @@
+Allow shared build.
+
+---
+ Makefile.am | 6 ------
+ configure.ac | 12 ------------
+ include/HE5_HdfEosDef.h | 1 +
+ src/Makefile.am | 3 ++-
+ 4 files changed, 3 insertions(+), 19 deletions(-)
+
+diff --git a/Makefile.am b/Makefile.am
+index 363bcfb..01ed024 100644
+--- a/Makefile.am
++++ b/Makefile.am
+@@ -3,13 +3,7 @@
+ # Include boilerplate
+ include $(top_srcdir)/config/include.am
+
+-# List of subdirectories.
+-# Only build the testdrivers directory if configure detected that it's present.
+-if TESTDRIVERS_CONDITIONAL
+-TESTDRIVERS=testdrivers
+-else
+ TESTDRIVERS=
+-endif
+
+ if INSTALL_INCLUDE_CONDITIONAL
+ INCLUDE=include
+diff --git a/configure.ac b/configure.ac
+index 5d48b43..cfa9d4e 100644
+--- a/configure.ac
++++ b/configure.ac
+@@ -13,9 +13,6 @@ AC_CONFIG_AUX_DIR([config])
+ AM_INIT_AUTOMAKE([foreign])
+ AM_MAINTAINER_MODE
+
+-# Disable shared libraries (for now)
+-AC_DISABLE_SHARED
+-
+ AM_PROG_LIBTOOL
+
+ dnl ----------------------------------------------------------------------
+@@ -597,13 +594,4 @@ AC_CONFIG_FILES([Makefile
+ gctp/src/Makefile
+ samples/Makefile])
+
+-if test "X$TESTDRIVERS_DIR" = "Xyes"; then
+- AC_CONFIG_FILES([ testdrivers/Makefile
+- testdrivers/grid/Makefile
+- testdrivers/point/Makefile
+- testdrivers/swath/Makefile
+- testdrivers/threads/Makefile
+- testdrivers/za/Makefile])
+-fi
+-
+ AC_OUTPUT
+diff --git a/include/HE5_HdfEosDef.h b/include/HE5_HdfEosDef.h
+index 9ed7881..abf0a90 100755
+--- a/include/HE5_HdfEosDef.h
++++ b/include/HE5_HdfEosDef.h
+@@ -24,6 +24,7 @@
+ #ifndef HE5_HDFEOSDEF_H_
+ #define HE5_HDFEOSDEF_H_
+
++#define H5_USE_16_API 1
+ #include <hdf5.h>
+
+ #ifdef H5_USE_16_API
+diff --git a/src/Makefile.am b/src/Makefile.am
+index 76b1d4c..daf7ad8 100644
+--- a/src/Makefile.am
++++ b/src/Makefile.am
+@@ -10,7 +10,8 @@ INCLUDES=-I$(top_srcdir)/include/
+
+ # Set LDFLAGS to allow the HDF-EOS library to use extern variables from
+ # HDF5
+-LDFLAGS=-Wl,-single_module
++LDFLAGS+= -shrext .so
++LIBS+= -lhdf5_hl -lhdf5 -lm
+
+ # Build HDF-EOS5
+ lib_LTLIBRARIES=libhe5_hdfeos.la
+--
+2.5.0
+
diff --git a/gnu/packages/patches/gctp-fix-soname.patch b/gnu/packages/patches/gctp-fix-soname.patch
new file mode 100644
index 0000000..5a32970
--- /dev/null
+++ b/gnu/packages/patches/gctp-fix-soname.patch
@@ -0,0 +1,31 @@
+Make library name all-lowercase.
+
+---
+ gctp/src/Makefile.am | 4 ++--
+ 1 file changed, 2 insertions(+), 2 deletions(-)
+
+diff --git a/gctp/src/Makefile.am b/gctp/src/Makefile.am
+index 76ecf1c..97c2438 100755
+--- a/gctp/src/Makefile.am
++++ b/gctp/src/Makefile.am
+@@ -4,7 +4,7 @@
+ include $(top_srcdir)/config/include.am
+
+ # Library to build
+-lib_LTLIBRARIES = libGctp.la
++lib_LTLIBRARIES = libgctp.la
+
+ ## Normally DEFAULT_INCLUDES is supplied by Automake, but one of the
+ ## directories included by default is $(top_builddir)/include, which
+@@ -17,7 +17,7 @@ DEFAULT_INCLUDES = -I. -I$(srcdir)
+ INCLUDES=-I$(srcdir)/../include/
+
+ # Library source files
+-libGctp_la_SOURCES = gctp.c alberfor.c alberinv.c alconfor.c alconinv.c \
++libgctp_la_SOURCES = gctp.c alberfor.c alberinv.c alconfor.c alconinv.c \
+ azimfor.c aziminv.c bceafor.c bceainv.c br_gctp.c ceafor.c \
+ ceainv.c cproj.c eqconfor.c eqconinv.c equifor.c equiinv.c \
+ for_init.c gnomfor.c gnominv.c goodfor.c goodinv.c gvnspfor.c \
+--
+2.5.0
+
diff --git a/gnu/packages/patches/gctp-remove-hdf-eos5.patch b/gnu/packages/patches/gctp-remove-hdf-eos5.patch
new file mode 100644
index 0000000..4601c5f
--- /dev/null
+++ b/gnu/packages/patches/gctp-remove-hdf-eos5.patch
@@ -0,0 +1,482 @@
+From c206a99fc4692ef9ea48a11bbb9de8a7dd44a7f8 Mon Sep 17 00:00:00 2001
+From: Thomas Danckaert <thomas.danckaert@gmail.com>
+Date: Fri, 17 Jun 2016 07:55:58 +0200
+Subject: [PATCH 1/2] Build only GCTP.
+
+---
+ Makefile.am | 2 +-
+ configure.ac | 430 +----------------------------------------------------------
+ 2 files changed, 2 insertions(+), 430 deletions(-)
+
+diff --git a/Makefile.am b/Makefile.am
+index 01ed024..335cf1a 100644
+--- a/Makefile.am
++++ b/Makefile.am
+@@ -11,5 +11,5 @@ else
+ INCLUDE=
+ endif
+
+-SUBDIRS=gctp src $(INCLUDE) samples $(TESTDRIVERS)
++SUBDIRS=gctp
+
+diff --git a/configure.ac b/configure.ac
+index cfa9d4e..2b531e4 100644
+--- a/configure.ac
++++ b/configure.ac
+@@ -22,80 +22,6 @@ AC_PREFIX_DEFAULT([`pwd`/hdfeos5])
+ # Check for the math library that HDF5 needs
+ AC_CHECK_LIB([m], [ceil])
+
+-# Check whether zlib is enabled.
+-# HDF-EOS5 doesn't use zlib, but HDF5 might. If HDF5 does, it needs
+-# to be given to the linker or there will be undefined symbols in HDF5.
+-# Using h5cc avoids the need to specify zlib at configure time.
+-AC_ARG_WITH([zlib],
+- [AC_HELP_STRING([--with-zlib=DIR],
+- [Specify path to external zlib library.
+- Linker must be able to find zlib if HDF5
+- was built with zlib.
+- [default=yes]])],,
+- withval=yes)
+-
+-case $withval in
+- yes)
+- HAVE_ZLIB="yes"
+- AC_CHECK_HEADERS([zlib.h],)
+- AC_CHECK_LIB([z], [compress2],, [unset HAVE_ZLIB])
+-
+- if test -z "$HAVE_ZLIB"; then
+- AC_MSG_ERROR([couldn't find zlib library])
+- fi
+- ;;
+- no)
+- HAVE_ZLIB="no"
+- AC_MSG_CHECKING([for GNU zlib])
+- AC_MSG_RESULT([suppressed])
+- ;;
+- *)
+- HAVE_ZLIB="yes"
+- case "$withval" in
+- *,*)
+- zlib_inc="`echo $withval |cut -f1 -d,`"
+- zlib_lib="`echo $withval |cut -f2 -d, -s`"
+- ;;
+- *)
+- if test -n "$withval"; then
+- zlib_inc="$withval/include"
+- zlib_lib="$withval/lib"
+- fi
+- ;;
+- esac
+-
+- dnl Trying to include -I/usr/include and -L/usr/lib is redundant and
+- dnl can mess some compilers up.
+- if test "X$zlib_inc" = "X/usr/include"; then
+- zlib_inc=""
+- fi
+- if test "X$zlib_lib" = "X/usr/lib"; then
+- zlib_lib=""
+- fi
+-
+- saved_CPPFLAGS="$CPPFLAGS"
+- saved_LDFLAGS="$LDFLAGS"
+-
+- if test -n "$zlib_inc"; then
+- CPPFLAGS="$CPPFLAGS -I$zlib_inc"
+- fi
+-
+- AC_CHECK_HEADERS([zlib.h], ,
+- [CPPFLAGS="$saved_CPPFLAGS"])
+-
+- if test -n "$zlib_lib"; then
+- LDFLAGS="$LDFLAGS -L$zlib_lib"
+- fi
+-
+- AC_CHECK_LIB([z], [compress2],,
+- [LDFLAGS="$saved_LDFLAGS"; unset HAVE_ZLIB])
+-
+- if test -z "$HAVE_ZLIB"; then
+- AC_MSG_ERROR([couldn't find zlib library])
+- fi
+- ;;
+-esac
+-
+ dnl --------------------------------------------------
+ dnl Check if -Df2cFortran is specified
+ dnl Running only the preprocessor may not be a good idea
+@@ -172,356 +98,6 @@ if test ${he5_cv_f2cFortran_defined} = "yes"; then
+ fi
+ fi
+
+-# Check whether szlib (szip) is enabled.
+-# HDF-EOS5 doesn't use szlib, but HDF5 might. If HDF5 does, it needs
+-# to be given to the linker or there will be undefined symbols in HDF5.
+-# Using h5cc should avoid the need to specify szlib at configure time.
+-AC_ARG_WITH([szlib],
+- [AC_HELP_STRING([--with-szlib=DIR],
+- [Use szlib library for external szlib I/O
+- filter. Linker must be able to find szlib
+- if HDF5 was build with szip. [default=no]])],,
+- withval=no)
+-
+-case $withval in
+- yes)
+- HAVE_SZLIB="yes"
+- AC_CHECK_HEADERS([szlib.h], [HAVE_SZLIB_H="yes"])
+- AC_CHECK_LIB([sz], [SZ_BufftoBuffCompress],, [unset HAVE_SZLIB])
+-
+- if test -z "$HAVE_SZLIB"; then
+- AC_MSG_ERROR([couldn't find szlib library, you may need to specify szip library path])
+- fi
+- ;;
+- no)
+- HAVE_SZLIB="no"
+- AC_MSG_CHECKING([for szlib])
+- AC_MSG_RESULT([suppressed])
+- ;;
+- *)
+- HAVE_SZLIB="yes"
+- case "$withval" in
+- *,*)
+- szlib_inc="`echo $withval |cut -f1 -d,`"
+- szlib_lib="`echo $withval |cut -f2 -d, -s`"
+- ;;
+- *)
+- if test -n "$withval"; then
+- szlib_inc="$withval/include"
+- szlib_lib="$withval/lib"
+- fi
+- ;;
+- esac
+-
+- dnl Check if szlib.h exists. We cannot use AC_CHECK_HEADERS here
+- dnl because it will use preprocessor. Preprocessor always succeeds in
+- dnl finding szlib.h because h4cc provides the path to szlib.h.
+- AC_CHECK_FILE($szlib_inc/szlib.h, , [unset HAVE_SZLIB])
+- if test -z "$HAVE_SZLIB"; then
+- AC_MSG_ERROR([couldn't find szlib.h, check szip library path])
+- fi
+-
+- dnl Trying to include -I/usr/include and -L/usr/lib is redundant and
+- dnl can mess some compilers up.
+- if test "X$szlib_inc" = "X/usr/include"; then
+- szlib_inc=""
+- fi
+- if test "X$szlib_lib" = "X/usr/lib"; then
+- szlib_lib=""
+- fi
+-
+- saved_CPPFLAGS="$CPPFLAGS"
+- saved_LDFLAGS="$LDFLAGS"
+-
+- if test -n "$szlib_inc"; then
+- CPPFLAGS="$CPPFLAGS -I$szlib_inc"
+- fi
+-
+- AC_CHECK_HEADERS([szlib.h],
+- [HAVE_SZLIB_H="yes"],
+- [CPPFLAGS="$saved_CPPFLAGS"])
+-
+- if test -n "$szlib_lib"; then
+- LDFLAGS="$LDFLAGS -L$szlib_lib"
+- fi
+-
+- AC_CHECK_LIB([sz], [SZ_BufftoBuffCompress],,
+- [LDFLAGS="$saved_LDFLAGS"; unset HAVE_SZLIB])
+-
+- if test -z "$HAVE_SZLIB" -a -n "$HDF5_CONFIG_ABORT"; then
+- AC_MSG_ERROR([couldn't find szlib library, check if szip library is valid])
+- fi
+- ;;
+-esac
+-
+-
+-if test "X$HAVE_SZLIB" = "Xyes"; then
+- dnl SZLIB library is available. Check if it can encode
+-
+- dnl Given that user specifies h5cc, LDFLAGS in h5cc should be overriden; otherwise,
+- dnl the encoding test will be performed on the SZIP library linked with HDF5, not
+- dnl the SZIP library user specifies. To suppress the SZIP library linked with HDF5,
+- dnl we prepend the user-specified SZIP library path to LDFLAGS in h5cc by using awk.
+-
+- AC_PROG_AWK
+-
+- AC_MSG_CHECKING([for h5cc])
+- PURE_CC=""
+- if ($CC -show &> /dev/null); then
+- dnl Since CC can be "h5cc -Df2cFortran", arguments should be removed
+- PURE_CC=`echo "$CC" | $AWK '{ split($1, array, " ") ; printf array[[1]] }'`
+- AC_MSG_RESULT([$PURE_CC])
+- else
+- AC_MSG_RESULT([$CC])
+- AC_MSG_ERROR([CC is not h5cc])
+- fi
+-
+- SZIP_CC=szip_cc
+- cat $PURE_CC | $AWK '{ if ( $0 ~ /^LDFLAGS=\"(.*)/ ) { print substr($0, 1, 9) " -L'$szlib_lib' " substr($0, 10) } else { print } } ' > $SZIP_CC
+- chmod 755 $SZIP_CC
+- saved_CC="$CC"
+- CC=./$SZIP_CC
+-
+- AC_MSG_CHECKING([for szlib encoder])
+-
+- AC_CACHE_VAL([he5_cv_szlib_functional],
+- [AC_TRY_RUN([
+- #include <stddef.h>
+- #include <szlib.h>
+-
+- int main(void)
+- {
+- SZ_encoder_enabled();
+- exit(0);
+- }
+- ], [he5_cv_szlib_functional=yes], [he5_cv_szlib_functional=no],)])
+-
+- AC_CACHE_VAL([he5_cv_szlib_can_encode],
+- [AC_TRY_RUN([
+- #include <stddef.h>
+- #include <szlib.h>
+-
+- int main(void)
+- {
+- /* SZ_encoder_enabled returns 1 if encoder is present */
+- if(SZ_encoder_enabled() == 1)
+- exit(0);
+- else
+- exit(1);
+- }
+- ], [he5_cv_szlib_can_encode=yes], [he5_cv_szlib_can_encode=no],)])
+-
+- CC="$saved_CC"
+- rm -f $SZIP_CC
+-
+- if test ${he5_cv_szlib_functional} = "no"; then
+- he5_cv_szlib_can_encode=broken
+- else
+- AC_DEFINE(HAVE_FILTER_SZIP, 1,
+- [Define if support for szip filter is enabled])
+- USE_FILTER_SZIP="yes"
+- fi
+-
+- if test ${he5_cv_szlib_can_encode} = "yes"; then
+- AC_DEFINE(HAVE_FILTER_SZIP_ENCODER, 1,
+- [Define if support for szip encoder filter is enabled])
+- USE_SZIP_ENCODER="yes"
+- AC_MSG_RESULT([yes])
+- fi
+- if test ${he5_cv_szlib_can_encode} = "no"; then
+- AC_MSG_RESULT([no])
+- fi
+- if test ${he5_cv_szlib_can_encode} = "broken"; then
+- AC_MSG_RESULT([shared szlib doesn't work. disabling szip.])
+- fi
+-
+- dnl Add "szip" to external filter list
+- if test ${he5_cv_szlib_can_encode} = "yes"; then
+- if test "X$EXTERNAL_FILTERS" != "X"; then
+- EXTERNAL_FILTERS="${EXTERNAL_FILTERS},"
+- fi
+- EXTERNAL_FILTERS="${EXTERNAL_FILTERS}szip(encoder)"
+- fi
+- if test ${he5_cv_szlib_can_encode} = "no"; then
+- if test "X$EXTERNAL_FILTERS" != "X"; then
+- EXTERNAL_FILTERS="${EXTERNAL_FILTERS},"
+- fi
+- EXTERNAL_FILTERS="${EXTERNAL_FILTERS}szip(no encoder)"
+- fi
+-fi
+-
+-# Check for the HDF5 library using the --with argument
+-# Of course HDF5 is required, but the user may be using h5cc, in which case
+-# they don't need to specify --with-hdf5. They can also use
+-# --with-hdf5=/path/to/hdf5 to give a specific path.
+-HAVE_HDF5="yes"
+-AC_ARG_WITH([hdf5],
+- [AC_HELP_STRING([--with-hdf5=DIR],
+- [Specify path to HDF5 library to use while building
+- [default=yes]])],,
+- withval=yes)
+-
+-case $withval in
+- yes)
+- ;;
+- no)
+- AC_MSG_ERROR([HDF5 disabled in confugre, but is required to build HDF-EOS5.])
+- ;;
+- *)
+- case "$withval" in
+- *,*)
+- hdf5_inc="`echo $withval |cut -f1 -d,`"
+- hdf5_lib="`echo $withval |cut -f2 -d, -s`"
+- ;;
+- *)
+- if test -n "$withval"; then
+- hdf5_inc="$withval/include"
+- hdf5_lib="$withval/lib"
+- fi
+- ;;
+- esac
+-
+- dnl Trying to include -I/usr/include and -L/usr/lib is redundant and
+- dnl can mess some compilers up.
+- if test "X$hdf5_inc" = "X/usr/include"; then
+- hdf5_inc=""
+- fi
+- if test "X$hdf5_lib" = "X/usr/lib"; then
+- hdf5_lib=""
+- fi
+-
+- if test -n "$hdf5_inc"; then
+- CPPFLAGS="$CPPFLAGS -I$hdf5_inc"
+- CFLAGS="$CFLAGS -I$hdf5_inc"
+- fi
+-
+- if test -n "$hdf5_lib"; then
+- LDFLAGS="$LDFLAGS -L$hdf5_lib"
+- fi
+- ;;
+-esac
+-
+-dnl See if we have a valid linking path to the HDF5 library, either because
+-dnl it's in the user's path or because they provided the correct path using
+-dnl --with-hdf5
+-AC_CHECK_HEADERS([hdf5.h], , [HAVE_HDF5="no"])
+-AC_CHECK_LIB(hdf5, H5Fcreate,, [HAVE_HDF5="no"])
+-
+-if test "X$HAVE_HDF5" = "Xno"; then
+- AC_MSG_ERROR([can't link against HDF5 library])
+-fi
+-
+-
+-# Check whether HDF5 threadsafety is enabled
+-AC_MSG_CHECKING([if HDF5 threadsafe mode is enabled])
+-AC_TRY_RUN([
+-#include "hdf5.h"
+-
+-int main(void) {
+-#ifdef H5_HAVE_THREADSAFE
+- return 0;
+-#else
+- return 1;
+-#endif
+-} ],
+- [ AC_MSG_RESULT([yes])
+- THREADSAFE="yes"],
+- [AC_MSG_RESULT([no])
+- THREADSAFE="no"])
+-
+-# Record threadsafe status in config.h and for Makefiles
+-if test "X$THREADSAFE" = "Xyes"; then
+- AC_DEFINE([_HDFEOS5_THREADSAFE], [1],
+- [Define if threadsafe HDF-EOS is enabled])
+-fi
+-
+-AM_CONDITIONAL([THREADSAFE_CONDITIONAL], [test "X$THREADSAFE" = "Xyes"])
+-
+-
+-if test "x$HAVE_HDF5" = "xyes"; then
+- dnl Check if HDF5 is linked with SZIP encoder
+-
+- AC_MSG_CHECKING([for hdf5 szip decoding filter])
+- AC_CACHE_VAL([he5_cv_hdf5_szip_can_decode],
+- [AC_TRY_RUN([
+- #include <H5Ipublic.h>
+- #include <H5Zpublic.h>
+-
+- int main(int argc, char **argv)
+- {
+- herr_t ret;
+- unsigned int flags = 0;
+- int decoder = 0;
+-
+- ret = H5Zget_filter_info(H5Z_FILTER_SZIP, &flags);
+- if (ret < 0) exit(1);
+- decoder = flags & H5Z_FILTER_CONFIG_DECODE_ENABLED;
+- if (decoder) exit(0);
+- else exit(1);
+- }
+- ], [he5_cv_hdf5_szip_can_decode=yes], [he5_cv_hdf5_szip_can_decode=no],)])
+- if test ${he5_cv_hdf5_szip_can_decode} = "yes"; then
+- AC_DEFINE(HAVE_HDF5_SZIP_DECODER, 1,
+- [Define if HDF5 has szip decoder filter])
+- AC_DEFINE(H5_HAVE_FILTER_SZIP, 1,
+- [Define if HDF5 has szip any type of filter])
+- AC_MSG_RESULT([yes])
+- else
+- AC_MSG_RESULT([no])
+- fi
+-
+- AC_MSG_CHECKING([for hdf5 szip encoding filter])
+- AC_CACHE_VAL([he5_cv_hdf5_szip_can_encode],
+- [AC_TRY_RUN([
+- #include <H5Ipublic.h>
+- #include <H5Zpublic.h>
+-
+- int main(int argc, char **argv)
+- {
+- herr_t ret;
+- unsigned int flags = 0;
+- int encoder = 0;
+-
+- ret = H5Zget_filter_info(H5Z_FILTER_SZIP, &flags);
+- if (ret < 0) exit(1);
+- encoder = flags & H5Z_FILTER_CONFIG_ENCODE_ENABLED;
+- if (encoder) exit(0);
+- else exit(1);
+- }
+- ], [he5_cv_hdf5_szip_can_encode=yes], [he5_cv_hdf5_szip_can_encode=no],)])
+-
+- if test ${he5_cv_hdf5_szip_can_encode} = "yes"; then
+- AC_DEFINE(HAVE_HDF5_SZIP_ENCODER, 1,
+- [Define if HDF5 has szip encoder filter])
+- AC_MSG_RESULT([yes])
+- else
+- AC_MSG_RESULT([no])
+- fi
+-
+- dnl Check if SZIP linked with HDF5 has the same configuration as SZIP given by --with-szlib option has
+- if test ${he5_cv_hdf5_szip_can_decode} = "no"; then
+- if test "X$HAVE_SZLIB" = "Xyes"; then
+- AC_MSG_ERROR([HDF5 was linked without SZIP, but --with-szlib was given])
+- fi
+- else
+- if test "X$HAVE_SZLIB" != "Xyes"; then
+- AC_MSG_ERROR([HDF5 was linked with SZIP, but --with-szlib was not given])
+- fi
+- if test ${he5_cv_szlib_functional} = "no"; then
+- AC_MSG_ERROR([SZIP specified in --with-szlib is not functional])
+- fi
+- if test ${he5_cv_hdf5_szip_can_encode} = "no"; then
+- if test ${he5_cv_szlib_can_encode} = "yes"; then
+- AC_MSG_ERROR([HDF5 was linked without SZIP encoder, but yours has SZIP encoder])
+- fi
+- else
+- if test ${he5_cv_szlib_can_encode} = "no"; then
+- AC_MSG_ERROR([HDF5 was linked with SZIP encoder, but yours does not have SZIP encoder])
+- fi
+- fi
+- fi
+-fi
+-
+ # Set CFLAGS to prevent AC_PROG_CC from setting it
+ CFLAGS=$CFLAGS
+
+@@ -584,14 +160,10 @@ AM_CONDITIONAL([INSTALL_INCLUDE_CONDITIONAL], [test "X$INSTALL_INCLUDE" = "Xyes"
+ AM_CONDITIONAL([F2CFORTRAN_CONDITIONAL], [test "X$F2CFORTRAN_MACRO" = "Xyes"])
+ AM_CONDITIONAL([F2CFORTRAN_90_CONDITIONAL], [test "X$F2CFORTRAN_90" = "Xyes"])
+ AM_CONDITIONAL([F2CFORTRAN_32PTR_CONDITIONAL], [test "X$F2CFORTRAN_32PTR" = "Xyes"])
+-AM_CONDITIONAL([SZIP_ENCODER_CONDITIONAL], [test "X$USE_SZIP_ENCODER" = "Xyes"])
+
+ AC_CONFIG_FILES([Makefile
+- include/Makefile
+- src/Makefile
+ gctp/Makefile
+ gctp/include/Makefile
+- gctp/src/Makefile
+- samples/Makefile])
++ gctp/src/Makefile])
+
+ AC_OUTPUT
+--
+2.5.0
+
diff --git a/guix/packages.scm b/guix/packages.scm
index d62d1f3..5cba5a5 100644
--- a/guix/packages.scm
+++ b/guix/packages.scm
@@ -406,6 +406,7 @@ IMPORTED-MODULES specify modules to use/import for use by SNIPPET."
(define decompression-type
(cond ((string-suffix? "gz" source-file-name) "gzip")
+ ((string-suffix? "Z" source-file-name) "gzip")
((string-suffix? "bz2" source-file-name) "bzip2")
((string-suffix? "lz" source-file-name) "lzip")
((string-suffix? "zip" source-file-name) "unzip")
--
2.5.0
^ permalink raw reply related [flat|nested] 16+ messages in thread
* [PATCH] Add gctp
@ 2016-06-17 12:40 Thomas Danckaert
2016-06-18 1:39 ` Leo Famulari
0 siblings, 1 reply; 16+ messages in thread
From: Thomas Danckaert @ 2016-06-17 12:40 UTC (permalink / raw)
To: guix-devel
[-- Attachment #1: Type: Text/Plain, Size: 481 bytes --]
Hi guix-devel,
this is a patch to add the GCTP library. It seems the library is no
longer maintained separately (“official” sources are gone), so this
package downloads the HDF-EOS5 source, which contains GCTP, and
patches the build to only build and install GCTP. (I'm packaging
HDF-EOS5 later on)
It's not very elegant... An alternative solution would be to get the
source package from, e.g. Debian, and build that (might involve less
patching).
Thomas
[-- Attachment #2: 0001-gnu-Add-gctp.patch --]
[-- Type: Text/X-Patch, Size: 22916 bytes --]
From 6c253d8ca12003bec3be4b040723d96e07445dfe Mon Sep 17 00:00:00 2001
From: Thomas Danckaert <thomas.danckaert@gmail.com>
Date: Fri, 17 Jun 2016 10:41:50 +0200
Subject: [PATCH] gnu: Add gctp
* gnu/packages/maths.cm (gctp): New variable
* guix/packages.scm (decompression-type): Modify by adding ".Z" suffix
for gzipped files.
* gnu/packages/patches/gct-build-shared.patch: patch build system for
shared builds.
* gnu/packages/patches/gctp-remove-hdf-eos5.patch: don't build the
hdf-eos5 library contained in the same archive.
* gnu/packages/patches/gctp-fix-soname.patch: use a lower case soname.
---
gnu/packages/maths.scm | 39 ++
gnu/packages/patches/gctp-build-shared.patch | 84 +++++
gnu/packages/patches/gctp-fix-soname.patch | 31 ++
gnu/packages/patches/gctp-remove-hdf-eos5.patch | 482 ++++++++++++++++++++++++
4 files changed, 636 insertions(+)
create mode 100644 gnu/packages/patches/gctp-build-shared.patch
create mode 100644 gnu/packages/patches/gctp-fix-soname.patch
create mode 100644 gnu/packages/patches/gctp-remove-hdf-eos5.patch
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 3b860a9..9cd0554 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -42,6 +42,8 @@
#:use-module (guix build-system gnu)
#:use-module (guix build-system r)
#:use-module (gnu packages algebra)
+ #:use-module (gnu packages autotools)
+ #:use-module (gnu packages base)
#:use-module (gnu packages bison)
#:use-module (gnu packages boost)
#:use-module (gnu packages check)
@@ -408,6 +410,43 @@ plotting engine by third-party applications like Octave.")
(license (license:fsf-free
"http://gnuplot.cvs.sourceforge.net/gnuplot/gnuplot/Copyright"))))
+(define-public gctp
+ (package
+ (name "gctp")
+ (version "1.0")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append "ftp://edhs1.gsfc.nasa.gov/edhs/hdfeos5/latest_release/HDF-EOS5.1.15.tar.Z"))
+ (sha256
+ (base32
+ "1p83333nzzy8rn5chxlm0hrkjjnhh2w1ji8ac0f9q4xzg838i58i"))
+ (patches (search-patches "gctp-build-shared.patch" "gctp-remove-hdf-eos5.patch" "gctp-fix-soname.patch"))
+ ))
+ (native-inputs
+ `(("autoconf" ,autoconf)
+ ("automake" ,automake)
+ ("libtool" ,libtool)
+ ("coreutils" ,coreutils)))
+ (build-system gnu-build-system)
+ (arguments
+ `(#:configure-flags '("--enable-install-include")
+ #:phases
+ (modify-phases %standard-phases
+ (add-before
+ 'configure 'autogen
+ (lambda _
+ (and (zero? (system* "chmod" "-R" "u+w" ".")) ; archive is read-only...
+ (zero? (system* "autoreconf" "--install")))))))) ; configure.ac was patched
+ (synopsis "General Cartographic Transformation Package (GCTP)")
+ (description
+ "The General Cartographic Transformation Package (GCTP) is a system of
+software routines designed to permit the transformation of coordinate pairs
+from one map projection to another. The GCTP is the standard computer
+software used by the National Mapping Division for map projection
+computations.")
+ (home-page "http://gcmd.nasa.gov/records/USGS-GCTP.html")
+ (license (license:bsd-style "http://gcmd.nasa.gov/records/USGS-GCTP.html"))))
+
(define-public hdf5
(package
(name "hdf5")
diff --git a/gnu/packages/patches/gctp-build-shared.patch b/gnu/packages/patches/gctp-build-shared.patch
new file mode 100644
index 0000000..1139fbb
--- /dev/null
+++ b/gnu/packages/patches/gctp-build-shared.patch
@@ -0,0 +1,84 @@
+Allow shared build.
+
+---
+ Makefile.am | 6 ------
+ configure.ac | 12 ------------
+ include/HE5_HdfEosDef.h | 1 +
+ src/Makefile.am | 3 ++-
+ 4 files changed, 3 insertions(+), 19 deletions(-)
+
+diff --git a/Makefile.am b/Makefile.am
+index 363bcfb..01ed024 100644
+--- a/Makefile.am
++++ b/Makefile.am
+@@ -3,13 +3,7 @@
+ # Include boilerplate
+ include $(top_srcdir)/config/include.am
+
+-# List of subdirectories.
+-# Only build the testdrivers directory if configure detected that it's present.
+-if TESTDRIVERS_CONDITIONAL
+-TESTDRIVERS=testdrivers
+-else
+ TESTDRIVERS=
+-endif
+
+ if INSTALL_INCLUDE_CONDITIONAL
+ INCLUDE=include
+diff --git a/configure.ac b/configure.ac
+index 5d48b43..cfa9d4e 100644
+--- a/configure.ac
++++ b/configure.ac
+@@ -13,9 +13,6 @@ AC_CONFIG_AUX_DIR([config])
+ AM_INIT_AUTOMAKE([foreign])
+ AM_MAINTAINER_MODE
+
+-# Disable shared libraries (for now)
+-AC_DISABLE_SHARED
+-
+ AM_PROG_LIBTOOL
+
+ dnl ----------------------------------------------------------------------
+@@ -597,13 +594,4 @@ AC_CONFIG_FILES([Makefile
+ gctp/src/Makefile
+ samples/Makefile])
+
+-if test "X$TESTDRIVERS_DIR" = "Xyes"; then
+- AC_CONFIG_FILES([ testdrivers/Makefile
+- testdrivers/grid/Makefile
+- testdrivers/point/Makefile
+- testdrivers/swath/Makefile
+- testdrivers/threads/Makefile
+- testdrivers/za/Makefile])
+-fi
+-
+ AC_OUTPUT
+diff --git a/include/HE5_HdfEosDef.h b/include/HE5_HdfEosDef.h
+index 9ed7881..abf0a90 100755
+--- a/include/HE5_HdfEosDef.h
++++ b/include/HE5_HdfEosDef.h
+@@ -24,6 +24,7 @@
+ #ifndef HE5_HDFEOSDEF_H_
+ #define HE5_HDFEOSDEF_H_
+
++#define H5_USE_16_API 1
+ #include <hdf5.h>
+
+ #ifdef H5_USE_16_API
+diff --git a/src/Makefile.am b/src/Makefile.am
+index 76b1d4c..daf7ad8 100644
+--- a/src/Makefile.am
++++ b/src/Makefile.am
+@@ -10,7 +10,8 @@ INCLUDES=-I$(top_srcdir)/include/
+
+ # Set LDFLAGS to allow the HDF-EOS library to use extern variables from
+ # HDF5
+-LDFLAGS=-Wl,-single_module
++LDFLAGS+= -shrext .so
++LIBS+= -lhdf5_hl -lhdf5 -lm
+
+ # Build HDF-EOS5
+ lib_LTLIBRARIES=libhe5_hdfeos.la
+--
+2.5.0
+
diff --git a/gnu/packages/patches/gctp-fix-soname.patch b/gnu/packages/patches/gctp-fix-soname.patch
new file mode 100644
index 0000000..5a32970
--- /dev/null
+++ b/gnu/packages/patches/gctp-fix-soname.patch
@@ -0,0 +1,31 @@
+Make library name all-lowercase.
+
+---
+ gctp/src/Makefile.am | 4 ++--
+ 1 file changed, 2 insertions(+), 2 deletions(-)
+
+diff --git a/gctp/src/Makefile.am b/gctp/src/Makefile.am
+index 76ecf1c..97c2438 100755
+--- a/gctp/src/Makefile.am
++++ b/gctp/src/Makefile.am
+@@ -4,7 +4,7 @@
+ include $(top_srcdir)/config/include.am
+
+ # Library to build
+-lib_LTLIBRARIES = libGctp.la
++lib_LTLIBRARIES = libgctp.la
+
+ ## Normally DEFAULT_INCLUDES is supplied by Automake, but one of the
+ ## directories included by default is $(top_builddir)/include, which
+@@ -17,7 +17,7 @@ DEFAULT_INCLUDES = -I. -I$(srcdir)
+ INCLUDES=-I$(srcdir)/../include/
+
+ # Library source files
+-libGctp_la_SOURCES = gctp.c alberfor.c alberinv.c alconfor.c alconinv.c \
++libgctp_la_SOURCES = gctp.c alberfor.c alberinv.c alconfor.c alconinv.c \
+ azimfor.c aziminv.c bceafor.c bceainv.c br_gctp.c ceafor.c \
+ ceainv.c cproj.c eqconfor.c eqconinv.c equifor.c equiinv.c \
+ for_init.c gnomfor.c gnominv.c goodfor.c goodinv.c gvnspfor.c \
+--
+2.5.0
+
diff --git a/gnu/packages/patches/gctp-remove-hdf-eos5.patch b/gnu/packages/patches/gctp-remove-hdf-eos5.patch
new file mode 100644
index 0000000..4601c5f
--- /dev/null
+++ b/gnu/packages/patches/gctp-remove-hdf-eos5.patch
@@ -0,0 +1,482 @@
+From c206a99fc4692ef9ea48a11bbb9de8a7dd44a7f8 Mon Sep 17 00:00:00 2001
+From: Thomas Danckaert <thomas.danckaert@gmail.com>
+Date: Fri, 17 Jun 2016 07:55:58 +0200
+Subject: [PATCH 1/2] Build only GCTP.
+
+---
+ Makefile.am | 2 +-
+ configure.ac | 430 +----------------------------------------------------------
+ 2 files changed, 2 insertions(+), 430 deletions(-)
+
+diff --git a/Makefile.am b/Makefile.am
+index 01ed024..335cf1a 100644
+--- a/Makefile.am
++++ b/Makefile.am
+@@ -11,5 +11,5 @@ else
+ INCLUDE=
+ endif
+
+-SUBDIRS=gctp src $(INCLUDE) samples $(TESTDRIVERS)
++SUBDIRS=gctp
+
+diff --git a/configure.ac b/configure.ac
+index cfa9d4e..2b531e4 100644
+--- a/configure.ac
++++ b/configure.ac
+@@ -22,80 +22,6 @@ AC_PREFIX_DEFAULT([`pwd`/hdfeos5])
+ # Check for the math library that HDF5 needs
+ AC_CHECK_LIB([m], [ceil])
+
+-# Check whether zlib is enabled.
+-# HDF-EOS5 doesn't use zlib, but HDF5 might. If HDF5 does, it needs
+-# to be given to the linker or there will be undefined symbols in HDF5.
+-# Using h5cc avoids the need to specify zlib at configure time.
+-AC_ARG_WITH([zlib],
+- [AC_HELP_STRING([--with-zlib=DIR],
+- [Specify path to external zlib library.
+- Linker must be able to find zlib if HDF5
+- was built with zlib.
+- [default=yes]])],,
+- withval=yes)
+-
+-case $withval in
+- yes)
+- HAVE_ZLIB="yes"
+- AC_CHECK_HEADERS([zlib.h],)
+- AC_CHECK_LIB([z], [compress2],, [unset HAVE_ZLIB])
+-
+- if test -z "$HAVE_ZLIB"; then
+- AC_MSG_ERROR([couldn't find zlib library])
+- fi
+- ;;
+- no)
+- HAVE_ZLIB="no"
+- AC_MSG_CHECKING([for GNU zlib])
+- AC_MSG_RESULT([suppressed])
+- ;;
+- *)
+- HAVE_ZLIB="yes"
+- case "$withval" in
+- *,*)
+- zlib_inc="`echo $withval |cut -f1 -d,`"
+- zlib_lib="`echo $withval |cut -f2 -d, -s`"
+- ;;
+- *)
+- if test -n "$withval"; then
+- zlib_inc="$withval/include"
+- zlib_lib="$withval/lib"
+- fi
+- ;;
+- esac
+-
+- dnl Trying to include -I/usr/include and -L/usr/lib is redundant and
+- dnl can mess some compilers up.
+- if test "X$zlib_inc" = "X/usr/include"; then
+- zlib_inc=""
+- fi
+- if test "X$zlib_lib" = "X/usr/lib"; then
+- zlib_lib=""
+- fi
+-
+- saved_CPPFLAGS="$CPPFLAGS"
+- saved_LDFLAGS="$LDFLAGS"
+-
+- if test -n "$zlib_inc"; then
+- CPPFLAGS="$CPPFLAGS -I$zlib_inc"
+- fi
+-
+- AC_CHECK_HEADERS([zlib.h], ,
+- [CPPFLAGS="$saved_CPPFLAGS"])
+-
+- if test -n "$zlib_lib"; then
+- LDFLAGS="$LDFLAGS -L$zlib_lib"
+- fi
+-
+- AC_CHECK_LIB([z], [compress2],,
+- [LDFLAGS="$saved_LDFLAGS"; unset HAVE_ZLIB])
+-
+- if test -z "$HAVE_ZLIB"; then
+- AC_MSG_ERROR([couldn't find zlib library])
+- fi
+- ;;
+-esac
+-
+ dnl --------------------------------------------------
+ dnl Check if -Df2cFortran is specified
+ dnl Running only the preprocessor may not be a good idea
+@@ -172,356 +98,6 @@ if test ${he5_cv_f2cFortran_defined} = "yes"; then
+ fi
+ fi
+
+-# Check whether szlib (szip) is enabled.
+-# HDF-EOS5 doesn't use szlib, but HDF5 might. If HDF5 does, it needs
+-# to be given to the linker or there will be undefined symbols in HDF5.
+-# Using h5cc should avoid the need to specify szlib at configure time.
+-AC_ARG_WITH([szlib],
+- [AC_HELP_STRING([--with-szlib=DIR],
+- [Use szlib library for external szlib I/O
+- filter. Linker must be able to find szlib
+- if HDF5 was build with szip. [default=no]])],,
+- withval=no)
+-
+-case $withval in
+- yes)
+- HAVE_SZLIB="yes"
+- AC_CHECK_HEADERS([szlib.h], [HAVE_SZLIB_H="yes"])
+- AC_CHECK_LIB([sz], [SZ_BufftoBuffCompress],, [unset HAVE_SZLIB])
+-
+- if test -z "$HAVE_SZLIB"; then
+- AC_MSG_ERROR([couldn't find szlib library, you may need to specify szip library path])
+- fi
+- ;;
+- no)
+- HAVE_SZLIB="no"
+- AC_MSG_CHECKING([for szlib])
+- AC_MSG_RESULT([suppressed])
+- ;;
+- *)
+- HAVE_SZLIB="yes"
+- case "$withval" in
+- *,*)
+- szlib_inc="`echo $withval |cut -f1 -d,`"
+- szlib_lib="`echo $withval |cut -f2 -d, -s`"
+- ;;
+- *)
+- if test -n "$withval"; then
+- szlib_inc="$withval/include"
+- szlib_lib="$withval/lib"
+- fi
+- ;;
+- esac
+-
+- dnl Check if szlib.h exists. We cannot use AC_CHECK_HEADERS here
+- dnl because it will use preprocessor. Preprocessor always succeeds in
+- dnl finding szlib.h because h4cc provides the path to szlib.h.
+- AC_CHECK_FILE($szlib_inc/szlib.h, , [unset HAVE_SZLIB])
+- if test -z "$HAVE_SZLIB"; then
+- AC_MSG_ERROR([couldn't find szlib.h, check szip library path])
+- fi
+-
+- dnl Trying to include -I/usr/include and -L/usr/lib is redundant and
+- dnl can mess some compilers up.
+- if test "X$szlib_inc" = "X/usr/include"; then
+- szlib_inc=""
+- fi
+- if test "X$szlib_lib" = "X/usr/lib"; then
+- szlib_lib=""
+- fi
+-
+- saved_CPPFLAGS="$CPPFLAGS"
+- saved_LDFLAGS="$LDFLAGS"
+-
+- if test -n "$szlib_inc"; then
+- CPPFLAGS="$CPPFLAGS -I$szlib_inc"
+- fi
+-
+- AC_CHECK_HEADERS([szlib.h],
+- [HAVE_SZLIB_H="yes"],
+- [CPPFLAGS="$saved_CPPFLAGS"])
+-
+- if test -n "$szlib_lib"; then
+- LDFLAGS="$LDFLAGS -L$szlib_lib"
+- fi
+-
+- AC_CHECK_LIB([sz], [SZ_BufftoBuffCompress],,
+- [LDFLAGS="$saved_LDFLAGS"; unset HAVE_SZLIB])
+-
+- if test -z "$HAVE_SZLIB" -a -n "$HDF5_CONFIG_ABORT"; then
+- AC_MSG_ERROR([couldn't find szlib library, check if szip library is valid])
+- fi
+- ;;
+-esac
+-
+-
+-if test "X$HAVE_SZLIB" = "Xyes"; then
+- dnl SZLIB library is available. Check if it can encode
+-
+- dnl Given that user specifies h5cc, LDFLAGS in h5cc should be overriden; otherwise,
+- dnl the encoding test will be performed on the SZIP library linked with HDF5, not
+- dnl the SZIP library user specifies. To suppress the SZIP library linked with HDF5,
+- dnl we prepend the user-specified SZIP library path to LDFLAGS in h5cc by using awk.
+-
+- AC_PROG_AWK
+-
+- AC_MSG_CHECKING([for h5cc])
+- PURE_CC=""
+- if ($CC -show &> /dev/null); then
+- dnl Since CC can be "h5cc -Df2cFortran", arguments should be removed
+- PURE_CC=`echo "$CC" | $AWK '{ split($1, array, " ") ; printf array[[1]] }'`
+- AC_MSG_RESULT([$PURE_CC])
+- else
+- AC_MSG_RESULT([$CC])
+- AC_MSG_ERROR([CC is not h5cc])
+- fi
+-
+- SZIP_CC=szip_cc
+- cat $PURE_CC | $AWK '{ if ( $0 ~ /^LDFLAGS=\"(.*)/ ) { print substr($0, 1, 9) " -L'$szlib_lib' " substr($0, 10) } else { print } } ' > $SZIP_CC
+- chmod 755 $SZIP_CC
+- saved_CC="$CC"
+- CC=./$SZIP_CC
+-
+- AC_MSG_CHECKING([for szlib encoder])
+-
+- AC_CACHE_VAL([he5_cv_szlib_functional],
+- [AC_TRY_RUN([
+- #include <stddef.h>
+- #include <szlib.h>
+-
+- int main(void)
+- {
+- SZ_encoder_enabled();
+- exit(0);
+- }
+- ], [he5_cv_szlib_functional=yes], [he5_cv_szlib_functional=no],)])
+-
+- AC_CACHE_VAL([he5_cv_szlib_can_encode],
+- [AC_TRY_RUN([
+- #include <stddef.h>
+- #include <szlib.h>
+-
+- int main(void)
+- {
+- /* SZ_encoder_enabled returns 1 if encoder is present */
+- if(SZ_encoder_enabled() == 1)
+- exit(0);
+- else
+- exit(1);
+- }
+- ], [he5_cv_szlib_can_encode=yes], [he5_cv_szlib_can_encode=no],)])
+-
+- CC="$saved_CC"
+- rm -f $SZIP_CC
+-
+- if test ${he5_cv_szlib_functional} = "no"; then
+- he5_cv_szlib_can_encode=broken
+- else
+- AC_DEFINE(HAVE_FILTER_SZIP, 1,
+- [Define if support for szip filter is enabled])
+- USE_FILTER_SZIP="yes"
+- fi
+-
+- if test ${he5_cv_szlib_can_encode} = "yes"; then
+- AC_DEFINE(HAVE_FILTER_SZIP_ENCODER, 1,
+- [Define if support for szip encoder filter is enabled])
+- USE_SZIP_ENCODER="yes"
+- AC_MSG_RESULT([yes])
+- fi
+- if test ${he5_cv_szlib_can_encode} = "no"; then
+- AC_MSG_RESULT([no])
+- fi
+- if test ${he5_cv_szlib_can_encode} = "broken"; then
+- AC_MSG_RESULT([shared szlib doesn't work. disabling szip.])
+- fi
+-
+- dnl Add "szip" to external filter list
+- if test ${he5_cv_szlib_can_encode} = "yes"; then
+- if test "X$EXTERNAL_FILTERS" != "X"; then
+- EXTERNAL_FILTERS="${EXTERNAL_FILTERS},"
+- fi
+- EXTERNAL_FILTERS="${EXTERNAL_FILTERS}szip(encoder)"
+- fi
+- if test ${he5_cv_szlib_can_encode} = "no"; then
+- if test "X$EXTERNAL_FILTERS" != "X"; then
+- EXTERNAL_FILTERS="${EXTERNAL_FILTERS},"
+- fi
+- EXTERNAL_FILTERS="${EXTERNAL_FILTERS}szip(no encoder)"
+- fi
+-fi
+-
+-# Check for the HDF5 library using the --with argument
+-# Of course HDF5 is required, but the user may be using h5cc, in which case
+-# they don't need to specify --with-hdf5. They can also use
+-# --with-hdf5=/path/to/hdf5 to give a specific path.
+-HAVE_HDF5="yes"
+-AC_ARG_WITH([hdf5],
+- [AC_HELP_STRING([--with-hdf5=DIR],
+- [Specify path to HDF5 library to use while building
+- [default=yes]])],,
+- withval=yes)
+-
+-case $withval in
+- yes)
+- ;;
+- no)
+- AC_MSG_ERROR([HDF5 disabled in confugre, but is required to build HDF-EOS5.])
+- ;;
+- *)
+- case "$withval" in
+- *,*)
+- hdf5_inc="`echo $withval |cut -f1 -d,`"
+- hdf5_lib="`echo $withval |cut -f2 -d, -s`"
+- ;;
+- *)
+- if test -n "$withval"; then
+- hdf5_inc="$withval/include"
+- hdf5_lib="$withval/lib"
+- fi
+- ;;
+- esac
+-
+- dnl Trying to include -I/usr/include and -L/usr/lib is redundant and
+- dnl can mess some compilers up.
+- if test "X$hdf5_inc" = "X/usr/include"; then
+- hdf5_inc=""
+- fi
+- if test "X$hdf5_lib" = "X/usr/lib"; then
+- hdf5_lib=""
+- fi
+-
+- if test -n "$hdf5_inc"; then
+- CPPFLAGS="$CPPFLAGS -I$hdf5_inc"
+- CFLAGS="$CFLAGS -I$hdf5_inc"
+- fi
+-
+- if test -n "$hdf5_lib"; then
+- LDFLAGS="$LDFLAGS -L$hdf5_lib"
+- fi
+- ;;
+-esac
+-
+-dnl See if we have a valid linking path to the HDF5 library, either because
+-dnl it's in the user's path or because they provided the correct path using
+-dnl --with-hdf5
+-AC_CHECK_HEADERS([hdf5.h], , [HAVE_HDF5="no"])
+-AC_CHECK_LIB(hdf5, H5Fcreate,, [HAVE_HDF5="no"])
+-
+-if test "X$HAVE_HDF5" = "Xno"; then
+- AC_MSG_ERROR([can't link against HDF5 library])
+-fi
+-
+-
+-# Check whether HDF5 threadsafety is enabled
+-AC_MSG_CHECKING([if HDF5 threadsafe mode is enabled])
+-AC_TRY_RUN([
+-#include "hdf5.h"
+-
+-int main(void) {
+-#ifdef H5_HAVE_THREADSAFE
+- return 0;
+-#else
+- return 1;
+-#endif
+-} ],
+- [ AC_MSG_RESULT([yes])
+- THREADSAFE="yes"],
+- [AC_MSG_RESULT([no])
+- THREADSAFE="no"])
+-
+-# Record threadsafe status in config.h and for Makefiles
+-if test "X$THREADSAFE" = "Xyes"; then
+- AC_DEFINE([_HDFEOS5_THREADSAFE], [1],
+- [Define if threadsafe HDF-EOS is enabled])
+-fi
+-
+-AM_CONDITIONAL([THREADSAFE_CONDITIONAL], [test "X$THREADSAFE" = "Xyes"])
+-
+-
+-if test "x$HAVE_HDF5" = "xyes"; then
+- dnl Check if HDF5 is linked with SZIP encoder
+-
+- AC_MSG_CHECKING([for hdf5 szip decoding filter])
+- AC_CACHE_VAL([he5_cv_hdf5_szip_can_decode],
+- [AC_TRY_RUN([
+- #include <H5Ipublic.h>
+- #include <H5Zpublic.h>
+-
+- int main(int argc, char **argv)
+- {
+- herr_t ret;
+- unsigned int flags = 0;
+- int decoder = 0;
+-
+- ret = H5Zget_filter_info(H5Z_FILTER_SZIP, &flags);
+- if (ret < 0) exit(1);
+- decoder = flags & H5Z_FILTER_CONFIG_DECODE_ENABLED;
+- if (decoder) exit(0);
+- else exit(1);
+- }
+- ], [he5_cv_hdf5_szip_can_decode=yes], [he5_cv_hdf5_szip_can_decode=no],)])
+- if test ${he5_cv_hdf5_szip_can_decode} = "yes"; then
+- AC_DEFINE(HAVE_HDF5_SZIP_DECODER, 1,
+- [Define if HDF5 has szip decoder filter])
+- AC_DEFINE(H5_HAVE_FILTER_SZIP, 1,
+- [Define if HDF5 has szip any type of filter])
+- AC_MSG_RESULT([yes])
+- else
+- AC_MSG_RESULT([no])
+- fi
+-
+- AC_MSG_CHECKING([for hdf5 szip encoding filter])
+- AC_CACHE_VAL([he5_cv_hdf5_szip_can_encode],
+- [AC_TRY_RUN([
+- #include <H5Ipublic.h>
+- #include <H5Zpublic.h>
+-
+- int main(int argc, char **argv)
+- {
+- herr_t ret;
+- unsigned int flags = 0;
+- int encoder = 0;
+-
+- ret = H5Zget_filter_info(H5Z_FILTER_SZIP, &flags);
+- if (ret < 0) exit(1);
+- encoder = flags & H5Z_FILTER_CONFIG_ENCODE_ENABLED;
+- if (encoder) exit(0);
+- else exit(1);
+- }
+- ], [he5_cv_hdf5_szip_can_encode=yes], [he5_cv_hdf5_szip_can_encode=no],)])
+-
+- if test ${he5_cv_hdf5_szip_can_encode} = "yes"; then
+- AC_DEFINE(HAVE_HDF5_SZIP_ENCODER, 1,
+- [Define if HDF5 has szip encoder filter])
+- AC_MSG_RESULT([yes])
+- else
+- AC_MSG_RESULT([no])
+- fi
+-
+- dnl Check if SZIP linked with HDF5 has the same configuration as SZIP given by --with-szlib option has
+- if test ${he5_cv_hdf5_szip_can_decode} = "no"; then
+- if test "X$HAVE_SZLIB" = "Xyes"; then
+- AC_MSG_ERROR([HDF5 was linked without SZIP, but --with-szlib was given])
+- fi
+- else
+- if test "X$HAVE_SZLIB" != "Xyes"; then
+- AC_MSG_ERROR([HDF5 was linked with SZIP, but --with-szlib was not given])
+- fi
+- if test ${he5_cv_szlib_functional} = "no"; then
+- AC_MSG_ERROR([SZIP specified in --with-szlib is not functional])
+- fi
+- if test ${he5_cv_hdf5_szip_can_encode} = "no"; then
+- if test ${he5_cv_szlib_can_encode} = "yes"; then
+- AC_MSG_ERROR([HDF5 was linked without SZIP encoder, but yours has SZIP encoder])
+- fi
+- else
+- if test ${he5_cv_szlib_can_encode} = "no"; then
+- AC_MSG_ERROR([HDF5 was linked with SZIP encoder, but yours does not have SZIP encoder])
+- fi
+- fi
+- fi
+-fi
+-
+ # Set CFLAGS to prevent AC_PROG_CC from setting it
+ CFLAGS=$CFLAGS
+
+@@ -584,14 +160,10 @@ AM_CONDITIONAL([INSTALL_INCLUDE_CONDITIONAL], [test "X$INSTALL_INCLUDE" = "Xyes"
+ AM_CONDITIONAL([F2CFORTRAN_CONDITIONAL], [test "X$F2CFORTRAN_MACRO" = "Xyes"])
+ AM_CONDITIONAL([F2CFORTRAN_90_CONDITIONAL], [test "X$F2CFORTRAN_90" = "Xyes"])
+ AM_CONDITIONAL([F2CFORTRAN_32PTR_CONDITIONAL], [test "X$F2CFORTRAN_32PTR" = "Xyes"])
+-AM_CONDITIONAL([SZIP_ENCODER_CONDITIONAL], [test "X$USE_SZIP_ENCODER" = "Xyes"])
+
+ AC_CONFIG_FILES([Makefile
+- include/Makefile
+- src/Makefile
+ gctp/Makefile
+ gctp/include/Makefile
+- gctp/src/Makefile
+- samples/Makefile])
++ gctp/src/Makefile])
+
+ AC_OUTPUT
+--
+2.5.0
+
--
2.5.0
^ permalink raw reply related [flat|nested] 16+ messages in thread
* [PATCH] Add gctp
@ 2016-06-17 12:41 Thomas Danckaert
0 siblings, 0 replies; 16+ messages in thread
From: Thomas Danckaert @ 2016-06-17 12:41 UTC (permalink / raw)
To: guix-devel
[-- Attachment #1: Type: Text/Plain, Size: 481 bytes --]
Hi guix-devel,
this is a patch to add the GCTP library. It seems the library is no
longer maintained separately (“official” sources are gone), so this
package downloads the HDF-EOS5 source, which contains GCTP, and
patches the build to only build and install GCTP. (I'm packaging
HDF-EOS5 later on)
It's not very elegant... An alternative solution would be to get the
source package from, e.g. Debian, and build that (might involve less
patching).
Thomas
[-- Attachment #2: 0001-gnu-Add-gctp.patch --]
[-- Type: Text/X-Patch, Size: 22916 bytes --]
From 6c253d8ca12003bec3be4b040723d96e07445dfe Mon Sep 17 00:00:00 2001
From: Thomas Danckaert <thomas.danckaert@gmail.com>
Date: Fri, 17 Jun 2016 10:41:50 +0200
Subject: [PATCH] gnu: Add gctp
* gnu/packages/maths.cm (gctp): New variable
* guix/packages.scm (decompression-type): Modify by adding ".Z" suffix
for gzipped files.
* gnu/packages/patches/gct-build-shared.patch: patch build system for
shared builds.
* gnu/packages/patches/gctp-remove-hdf-eos5.patch: don't build the
hdf-eos5 library contained in the same archive.
* gnu/packages/patches/gctp-fix-soname.patch: use a lower case soname.
---
gnu/packages/maths.scm | 39 ++
gnu/packages/patches/gctp-build-shared.patch | 84 +++++
gnu/packages/patches/gctp-fix-soname.patch | 31 ++
gnu/packages/patches/gctp-remove-hdf-eos5.patch | 482 ++++++++++++++++++++++++
4 files changed, 636 insertions(+)
create mode 100644 gnu/packages/patches/gctp-build-shared.patch
create mode 100644 gnu/packages/patches/gctp-fix-soname.patch
create mode 100644 gnu/packages/patches/gctp-remove-hdf-eos5.patch
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 3b860a9..9cd0554 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -42,6 +42,8 @@
#:use-module (guix build-system gnu)
#:use-module (guix build-system r)
#:use-module (gnu packages algebra)
+ #:use-module (gnu packages autotools)
+ #:use-module (gnu packages base)
#:use-module (gnu packages bison)
#:use-module (gnu packages boost)
#:use-module (gnu packages check)
@@ -408,6 +410,43 @@ plotting engine by third-party applications like Octave.")
(license (license:fsf-free
"http://gnuplot.cvs.sourceforge.net/gnuplot/gnuplot/Copyright"))))
+(define-public gctp
+ (package
+ (name "gctp")
+ (version "1.0")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append "ftp://edhs1.gsfc.nasa.gov/edhs/hdfeos5/latest_release/HDF-EOS5.1.15.tar.Z"))
+ (sha256
+ (base32
+ "1p83333nzzy8rn5chxlm0hrkjjnhh2w1ji8ac0f9q4xzg838i58i"))
+ (patches (search-patches "gctp-build-shared.patch" "gctp-remove-hdf-eos5.patch" "gctp-fix-soname.patch"))
+ ))
+ (native-inputs
+ `(("autoconf" ,autoconf)
+ ("automake" ,automake)
+ ("libtool" ,libtool)
+ ("coreutils" ,coreutils)))
+ (build-system gnu-build-system)
+ (arguments
+ `(#:configure-flags '("--enable-install-include")
+ #:phases
+ (modify-phases %standard-phases
+ (add-before
+ 'configure 'autogen
+ (lambda _
+ (and (zero? (system* "chmod" "-R" "u+w" ".")) ; archive is read-only...
+ (zero? (system* "autoreconf" "--install")))))))) ; configure.ac was patched
+ (synopsis "General Cartographic Transformation Package (GCTP)")
+ (description
+ "The General Cartographic Transformation Package (GCTP) is a system of
+software routines designed to permit the transformation of coordinate pairs
+from one map projection to another. The GCTP is the standard computer
+software used by the National Mapping Division for map projection
+computations.")
+ (home-page "http://gcmd.nasa.gov/records/USGS-GCTP.html")
+ (license (license:bsd-style "http://gcmd.nasa.gov/records/USGS-GCTP.html"))))
+
(define-public hdf5
(package
(name "hdf5")
diff --git a/gnu/packages/patches/gctp-build-shared.patch b/gnu/packages/patches/gctp-build-shared.patch
new file mode 100644
index 0000000..1139fbb
--- /dev/null
+++ b/gnu/packages/patches/gctp-build-shared.patch
@@ -0,0 +1,84 @@
+Allow shared build.
+
+---
+ Makefile.am | 6 ------
+ configure.ac | 12 ------------
+ include/HE5_HdfEosDef.h | 1 +
+ src/Makefile.am | 3 ++-
+ 4 files changed, 3 insertions(+), 19 deletions(-)
+
+diff --git a/Makefile.am b/Makefile.am
+index 363bcfb..01ed024 100644
+--- a/Makefile.am
++++ b/Makefile.am
+@@ -3,13 +3,7 @@
+ # Include boilerplate
+ include $(top_srcdir)/config/include.am
+
+-# List of subdirectories.
+-# Only build the testdrivers directory if configure detected that it's present.
+-if TESTDRIVERS_CONDITIONAL
+-TESTDRIVERS=testdrivers
+-else
+ TESTDRIVERS=
+-endif
+
+ if INSTALL_INCLUDE_CONDITIONAL
+ INCLUDE=include
+diff --git a/configure.ac b/configure.ac
+index 5d48b43..cfa9d4e 100644
+--- a/configure.ac
++++ b/configure.ac
+@@ -13,9 +13,6 @@ AC_CONFIG_AUX_DIR([config])
+ AM_INIT_AUTOMAKE([foreign])
+ AM_MAINTAINER_MODE
+
+-# Disable shared libraries (for now)
+-AC_DISABLE_SHARED
+-
+ AM_PROG_LIBTOOL
+
+ dnl ----------------------------------------------------------------------
+@@ -597,13 +594,4 @@ AC_CONFIG_FILES([Makefile
+ gctp/src/Makefile
+ samples/Makefile])
+
+-if test "X$TESTDRIVERS_DIR" = "Xyes"; then
+- AC_CONFIG_FILES([ testdrivers/Makefile
+- testdrivers/grid/Makefile
+- testdrivers/point/Makefile
+- testdrivers/swath/Makefile
+- testdrivers/threads/Makefile
+- testdrivers/za/Makefile])
+-fi
+-
+ AC_OUTPUT
+diff --git a/include/HE5_HdfEosDef.h b/include/HE5_HdfEosDef.h
+index 9ed7881..abf0a90 100755
+--- a/include/HE5_HdfEosDef.h
++++ b/include/HE5_HdfEosDef.h
+@@ -24,6 +24,7 @@
+ #ifndef HE5_HDFEOSDEF_H_
+ #define HE5_HDFEOSDEF_H_
+
++#define H5_USE_16_API 1
+ #include <hdf5.h>
+
+ #ifdef H5_USE_16_API
+diff --git a/src/Makefile.am b/src/Makefile.am
+index 76b1d4c..daf7ad8 100644
+--- a/src/Makefile.am
++++ b/src/Makefile.am
+@@ -10,7 +10,8 @@ INCLUDES=-I$(top_srcdir)/include/
+
+ # Set LDFLAGS to allow the HDF-EOS library to use extern variables from
+ # HDF5
+-LDFLAGS=-Wl,-single_module
++LDFLAGS+= -shrext .so
++LIBS+= -lhdf5_hl -lhdf5 -lm
+
+ # Build HDF-EOS5
+ lib_LTLIBRARIES=libhe5_hdfeos.la
+--
+2.5.0
+
diff --git a/gnu/packages/patches/gctp-fix-soname.patch b/gnu/packages/patches/gctp-fix-soname.patch
new file mode 100644
index 0000000..5a32970
--- /dev/null
+++ b/gnu/packages/patches/gctp-fix-soname.patch
@@ -0,0 +1,31 @@
+Make library name all-lowercase.
+
+---
+ gctp/src/Makefile.am | 4 ++--
+ 1 file changed, 2 insertions(+), 2 deletions(-)
+
+diff --git a/gctp/src/Makefile.am b/gctp/src/Makefile.am
+index 76ecf1c..97c2438 100755
+--- a/gctp/src/Makefile.am
++++ b/gctp/src/Makefile.am
+@@ -4,7 +4,7 @@
+ include $(top_srcdir)/config/include.am
+
+ # Library to build
+-lib_LTLIBRARIES = libGctp.la
++lib_LTLIBRARIES = libgctp.la
+
+ ## Normally DEFAULT_INCLUDES is supplied by Automake, but one of the
+ ## directories included by default is $(top_builddir)/include, which
+@@ -17,7 +17,7 @@ DEFAULT_INCLUDES = -I. -I$(srcdir)
+ INCLUDES=-I$(srcdir)/../include/
+
+ # Library source files
+-libGctp_la_SOURCES = gctp.c alberfor.c alberinv.c alconfor.c alconinv.c \
++libgctp_la_SOURCES = gctp.c alberfor.c alberinv.c alconfor.c alconinv.c \
+ azimfor.c aziminv.c bceafor.c bceainv.c br_gctp.c ceafor.c \
+ ceainv.c cproj.c eqconfor.c eqconinv.c equifor.c equiinv.c \
+ for_init.c gnomfor.c gnominv.c goodfor.c goodinv.c gvnspfor.c \
+--
+2.5.0
+
diff --git a/gnu/packages/patches/gctp-remove-hdf-eos5.patch b/gnu/packages/patches/gctp-remove-hdf-eos5.patch
new file mode 100644
index 0000000..4601c5f
--- /dev/null
+++ b/gnu/packages/patches/gctp-remove-hdf-eos5.patch
@@ -0,0 +1,482 @@
+From c206a99fc4692ef9ea48a11bbb9de8a7dd44a7f8 Mon Sep 17 00:00:00 2001
+From: Thomas Danckaert <thomas.danckaert@gmail.com>
+Date: Fri, 17 Jun 2016 07:55:58 +0200
+Subject: [PATCH 1/2] Build only GCTP.
+
+---
+ Makefile.am | 2 +-
+ configure.ac | 430 +----------------------------------------------------------
+ 2 files changed, 2 insertions(+), 430 deletions(-)
+
+diff --git a/Makefile.am b/Makefile.am
+index 01ed024..335cf1a 100644
+--- a/Makefile.am
++++ b/Makefile.am
+@@ -11,5 +11,5 @@ else
+ INCLUDE=
+ endif
+
+-SUBDIRS=gctp src $(INCLUDE) samples $(TESTDRIVERS)
++SUBDIRS=gctp
+
+diff --git a/configure.ac b/configure.ac
+index cfa9d4e..2b531e4 100644
+--- a/configure.ac
++++ b/configure.ac
+@@ -22,80 +22,6 @@ AC_PREFIX_DEFAULT([`pwd`/hdfeos5])
+ # Check for the math library that HDF5 needs
+ AC_CHECK_LIB([m], [ceil])
+
+-# Check whether zlib is enabled.
+-# HDF-EOS5 doesn't use zlib, but HDF5 might. If HDF5 does, it needs
+-# to be given to the linker or there will be undefined symbols in HDF5.
+-# Using h5cc avoids the need to specify zlib at configure time.
+-AC_ARG_WITH([zlib],
+- [AC_HELP_STRING([--with-zlib=DIR],
+- [Specify path to external zlib library.
+- Linker must be able to find zlib if HDF5
+- was built with zlib.
+- [default=yes]])],,
+- withval=yes)
+-
+-case $withval in
+- yes)
+- HAVE_ZLIB="yes"
+- AC_CHECK_HEADERS([zlib.h],)
+- AC_CHECK_LIB([z], [compress2],, [unset HAVE_ZLIB])
+-
+- if test -z "$HAVE_ZLIB"; then
+- AC_MSG_ERROR([couldn't find zlib library])
+- fi
+- ;;
+- no)
+- HAVE_ZLIB="no"
+- AC_MSG_CHECKING([for GNU zlib])
+- AC_MSG_RESULT([suppressed])
+- ;;
+- *)
+- HAVE_ZLIB="yes"
+- case "$withval" in
+- *,*)
+- zlib_inc="`echo $withval |cut -f1 -d,`"
+- zlib_lib="`echo $withval |cut -f2 -d, -s`"
+- ;;
+- *)
+- if test -n "$withval"; then
+- zlib_inc="$withval/include"
+- zlib_lib="$withval/lib"
+- fi
+- ;;
+- esac
+-
+- dnl Trying to include -I/usr/include and -L/usr/lib is redundant and
+- dnl can mess some compilers up.
+- if test "X$zlib_inc" = "X/usr/include"; then
+- zlib_inc=""
+- fi
+- if test "X$zlib_lib" = "X/usr/lib"; then
+- zlib_lib=""
+- fi
+-
+- saved_CPPFLAGS="$CPPFLAGS"
+- saved_LDFLAGS="$LDFLAGS"
+-
+- if test -n "$zlib_inc"; then
+- CPPFLAGS="$CPPFLAGS -I$zlib_inc"
+- fi
+-
+- AC_CHECK_HEADERS([zlib.h], ,
+- [CPPFLAGS="$saved_CPPFLAGS"])
+-
+- if test -n "$zlib_lib"; then
+- LDFLAGS="$LDFLAGS -L$zlib_lib"
+- fi
+-
+- AC_CHECK_LIB([z], [compress2],,
+- [LDFLAGS="$saved_LDFLAGS"; unset HAVE_ZLIB])
+-
+- if test -z "$HAVE_ZLIB"; then
+- AC_MSG_ERROR([couldn't find zlib library])
+- fi
+- ;;
+-esac
+-
+ dnl --------------------------------------------------
+ dnl Check if -Df2cFortran is specified
+ dnl Running only the preprocessor may not be a good idea
+@@ -172,356 +98,6 @@ if test ${he5_cv_f2cFortran_defined} = "yes"; then
+ fi
+ fi
+
+-# Check whether szlib (szip) is enabled.
+-# HDF-EOS5 doesn't use szlib, but HDF5 might. If HDF5 does, it needs
+-# to be given to the linker or there will be undefined symbols in HDF5.
+-# Using h5cc should avoid the need to specify szlib at configure time.
+-AC_ARG_WITH([szlib],
+- [AC_HELP_STRING([--with-szlib=DIR],
+- [Use szlib library for external szlib I/O
+- filter. Linker must be able to find szlib
+- if HDF5 was build with szip. [default=no]])],,
+- withval=no)
+-
+-case $withval in
+- yes)
+- HAVE_SZLIB="yes"
+- AC_CHECK_HEADERS([szlib.h], [HAVE_SZLIB_H="yes"])
+- AC_CHECK_LIB([sz], [SZ_BufftoBuffCompress],, [unset HAVE_SZLIB])
+-
+- if test -z "$HAVE_SZLIB"; then
+- AC_MSG_ERROR([couldn't find szlib library, you may need to specify szip library path])
+- fi
+- ;;
+- no)
+- HAVE_SZLIB="no"
+- AC_MSG_CHECKING([for szlib])
+- AC_MSG_RESULT([suppressed])
+- ;;
+- *)
+- HAVE_SZLIB="yes"
+- case "$withval" in
+- *,*)
+- szlib_inc="`echo $withval |cut -f1 -d,`"
+- szlib_lib="`echo $withval |cut -f2 -d, -s`"
+- ;;
+- *)
+- if test -n "$withval"; then
+- szlib_inc="$withval/include"
+- szlib_lib="$withval/lib"
+- fi
+- ;;
+- esac
+-
+- dnl Check if szlib.h exists. We cannot use AC_CHECK_HEADERS here
+- dnl because it will use preprocessor. Preprocessor always succeeds in
+- dnl finding szlib.h because h4cc provides the path to szlib.h.
+- AC_CHECK_FILE($szlib_inc/szlib.h, , [unset HAVE_SZLIB])
+- if test -z "$HAVE_SZLIB"; then
+- AC_MSG_ERROR([couldn't find szlib.h, check szip library path])
+- fi
+-
+- dnl Trying to include -I/usr/include and -L/usr/lib is redundant and
+- dnl can mess some compilers up.
+- if test "X$szlib_inc" = "X/usr/include"; then
+- szlib_inc=""
+- fi
+- if test "X$szlib_lib" = "X/usr/lib"; then
+- szlib_lib=""
+- fi
+-
+- saved_CPPFLAGS="$CPPFLAGS"
+- saved_LDFLAGS="$LDFLAGS"
+-
+- if test -n "$szlib_inc"; then
+- CPPFLAGS="$CPPFLAGS -I$szlib_inc"
+- fi
+-
+- AC_CHECK_HEADERS([szlib.h],
+- [HAVE_SZLIB_H="yes"],
+- [CPPFLAGS="$saved_CPPFLAGS"])
+-
+- if test -n "$szlib_lib"; then
+- LDFLAGS="$LDFLAGS -L$szlib_lib"
+- fi
+-
+- AC_CHECK_LIB([sz], [SZ_BufftoBuffCompress],,
+- [LDFLAGS="$saved_LDFLAGS"; unset HAVE_SZLIB])
+-
+- if test -z "$HAVE_SZLIB" -a -n "$HDF5_CONFIG_ABORT"; then
+- AC_MSG_ERROR([couldn't find szlib library, check if szip library is valid])
+- fi
+- ;;
+-esac
+-
+-
+-if test "X$HAVE_SZLIB" = "Xyes"; then
+- dnl SZLIB library is available. Check if it can encode
+-
+- dnl Given that user specifies h5cc, LDFLAGS in h5cc should be overriden; otherwise,
+- dnl the encoding test will be performed on the SZIP library linked with HDF5, not
+- dnl the SZIP library user specifies. To suppress the SZIP library linked with HDF5,
+- dnl we prepend the user-specified SZIP library path to LDFLAGS in h5cc by using awk.
+-
+- AC_PROG_AWK
+-
+- AC_MSG_CHECKING([for h5cc])
+- PURE_CC=""
+- if ($CC -show &> /dev/null); then
+- dnl Since CC can be "h5cc -Df2cFortran", arguments should be removed
+- PURE_CC=`echo "$CC" | $AWK '{ split($1, array, " ") ; printf array[[1]] }'`
+- AC_MSG_RESULT([$PURE_CC])
+- else
+- AC_MSG_RESULT([$CC])
+- AC_MSG_ERROR([CC is not h5cc])
+- fi
+-
+- SZIP_CC=szip_cc
+- cat $PURE_CC | $AWK '{ if ( $0 ~ /^LDFLAGS=\"(.*)/ ) { print substr($0, 1, 9) " -L'$szlib_lib' " substr($0, 10) } else { print } } ' > $SZIP_CC
+- chmod 755 $SZIP_CC
+- saved_CC="$CC"
+- CC=./$SZIP_CC
+-
+- AC_MSG_CHECKING([for szlib encoder])
+-
+- AC_CACHE_VAL([he5_cv_szlib_functional],
+- [AC_TRY_RUN([
+- #include <stddef.h>
+- #include <szlib.h>
+-
+- int main(void)
+- {
+- SZ_encoder_enabled();
+- exit(0);
+- }
+- ], [he5_cv_szlib_functional=yes], [he5_cv_szlib_functional=no],)])
+-
+- AC_CACHE_VAL([he5_cv_szlib_can_encode],
+- [AC_TRY_RUN([
+- #include <stddef.h>
+- #include <szlib.h>
+-
+- int main(void)
+- {
+- /* SZ_encoder_enabled returns 1 if encoder is present */
+- if(SZ_encoder_enabled() == 1)
+- exit(0);
+- else
+- exit(1);
+- }
+- ], [he5_cv_szlib_can_encode=yes], [he5_cv_szlib_can_encode=no],)])
+-
+- CC="$saved_CC"
+- rm -f $SZIP_CC
+-
+- if test ${he5_cv_szlib_functional} = "no"; then
+- he5_cv_szlib_can_encode=broken
+- else
+- AC_DEFINE(HAVE_FILTER_SZIP, 1,
+- [Define if support for szip filter is enabled])
+- USE_FILTER_SZIP="yes"
+- fi
+-
+- if test ${he5_cv_szlib_can_encode} = "yes"; then
+- AC_DEFINE(HAVE_FILTER_SZIP_ENCODER, 1,
+- [Define if support for szip encoder filter is enabled])
+- USE_SZIP_ENCODER="yes"
+- AC_MSG_RESULT([yes])
+- fi
+- if test ${he5_cv_szlib_can_encode} = "no"; then
+- AC_MSG_RESULT([no])
+- fi
+- if test ${he5_cv_szlib_can_encode} = "broken"; then
+- AC_MSG_RESULT([shared szlib doesn't work. disabling szip.])
+- fi
+-
+- dnl Add "szip" to external filter list
+- if test ${he5_cv_szlib_can_encode} = "yes"; then
+- if test "X$EXTERNAL_FILTERS" != "X"; then
+- EXTERNAL_FILTERS="${EXTERNAL_FILTERS},"
+- fi
+- EXTERNAL_FILTERS="${EXTERNAL_FILTERS}szip(encoder)"
+- fi
+- if test ${he5_cv_szlib_can_encode} = "no"; then
+- if test "X$EXTERNAL_FILTERS" != "X"; then
+- EXTERNAL_FILTERS="${EXTERNAL_FILTERS},"
+- fi
+- EXTERNAL_FILTERS="${EXTERNAL_FILTERS}szip(no encoder)"
+- fi
+-fi
+-
+-# Check for the HDF5 library using the --with argument
+-# Of course HDF5 is required, but the user may be using h5cc, in which case
+-# they don't need to specify --with-hdf5. They can also use
+-# --with-hdf5=/path/to/hdf5 to give a specific path.
+-HAVE_HDF5="yes"
+-AC_ARG_WITH([hdf5],
+- [AC_HELP_STRING([--with-hdf5=DIR],
+- [Specify path to HDF5 library to use while building
+- [default=yes]])],,
+- withval=yes)
+-
+-case $withval in
+- yes)
+- ;;
+- no)
+- AC_MSG_ERROR([HDF5 disabled in confugre, but is required to build HDF-EOS5.])
+- ;;
+- *)
+- case "$withval" in
+- *,*)
+- hdf5_inc="`echo $withval |cut -f1 -d,`"
+- hdf5_lib="`echo $withval |cut -f2 -d, -s`"
+- ;;
+- *)
+- if test -n "$withval"; then
+- hdf5_inc="$withval/include"
+- hdf5_lib="$withval/lib"
+- fi
+- ;;
+- esac
+-
+- dnl Trying to include -I/usr/include and -L/usr/lib is redundant and
+- dnl can mess some compilers up.
+- if test "X$hdf5_inc" = "X/usr/include"; then
+- hdf5_inc=""
+- fi
+- if test "X$hdf5_lib" = "X/usr/lib"; then
+- hdf5_lib=""
+- fi
+-
+- if test -n "$hdf5_inc"; then
+- CPPFLAGS="$CPPFLAGS -I$hdf5_inc"
+- CFLAGS="$CFLAGS -I$hdf5_inc"
+- fi
+-
+- if test -n "$hdf5_lib"; then
+- LDFLAGS="$LDFLAGS -L$hdf5_lib"
+- fi
+- ;;
+-esac
+-
+-dnl See if we have a valid linking path to the HDF5 library, either because
+-dnl it's in the user's path or because they provided the correct path using
+-dnl --with-hdf5
+-AC_CHECK_HEADERS([hdf5.h], , [HAVE_HDF5="no"])
+-AC_CHECK_LIB(hdf5, H5Fcreate,, [HAVE_HDF5="no"])
+-
+-if test "X$HAVE_HDF5" = "Xno"; then
+- AC_MSG_ERROR([can't link against HDF5 library])
+-fi
+-
+-
+-# Check whether HDF5 threadsafety is enabled
+-AC_MSG_CHECKING([if HDF5 threadsafe mode is enabled])
+-AC_TRY_RUN([
+-#include "hdf5.h"
+-
+-int main(void) {
+-#ifdef H5_HAVE_THREADSAFE
+- return 0;
+-#else
+- return 1;
+-#endif
+-} ],
+- [ AC_MSG_RESULT([yes])
+- THREADSAFE="yes"],
+- [AC_MSG_RESULT([no])
+- THREADSAFE="no"])
+-
+-# Record threadsafe status in config.h and for Makefiles
+-if test "X$THREADSAFE" = "Xyes"; then
+- AC_DEFINE([_HDFEOS5_THREADSAFE], [1],
+- [Define if threadsafe HDF-EOS is enabled])
+-fi
+-
+-AM_CONDITIONAL([THREADSAFE_CONDITIONAL], [test "X$THREADSAFE" = "Xyes"])
+-
+-
+-if test "x$HAVE_HDF5" = "xyes"; then
+- dnl Check if HDF5 is linked with SZIP encoder
+-
+- AC_MSG_CHECKING([for hdf5 szip decoding filter])
+- AC_CACHE_VAL([he5_cv_hdf5_szip_can_decode],
+- [AC_TRY_RUN([
+- #include <H5Ipublic.h>
+- #include <H5Zpublic.h>
+-
+- int main(int argc, char **argv)
+- {
+- herr_t ret;
+- unsigned int flags = 0;
+- int decoder = 0;
+-
+- ret = H5Zget_filter_info(H5Z_FILTER_SZIP, &flags);
+- if (ret < 0) exit(1);
+- decoder = flags & H5Z_FILTER_CONFIG_DECODE_ENABLED;
+- if (decoder) exit(0);
+- else exit(1);
+- }
+- ], [he5_cv_hdf5_szip_can_decode=yes], [he5_cv_hdf5_szip_can_decode=no],)])
+- if test ${he5_cv_hdf5_szip_can_decode} = "yes"; then
+- AC_DEFINE(HAVE_HDF5_SZIP_DECODER, 1,
+- [Define if HDF5 has szip decoder filter])
+- AC_DEFINE(H5_HAVE_FILTER_SZIP, 1,
+- [Define if HDF5 has szip any type of filter])
+- AC_MSG_RESULT([yes])
+- else
+- AC_MSG_RESULT([no])
+- fi
+-
+- AC_MSG_CHECKING([for hdf5 szip encoding filter])
+- AC_CACHE_VAL([he5_cv_hdf5_szip_can_encode],
+- [AC_TRY_RUN([
+- #include <H5Ipublic.h>
+- #include <H5Zpublic.h>
+-
+- int main(int argc, char **argv)
+- {
+- herr_t ret;
+- unsigned int flags = 0;
+- int encoder = 0;
+-
+- ret = H5Zget_filter_info(H5Z_FILTER_SZIP, &flags);
+- if (ret < 0) exit(1);
+- encoder = flags & H5Z_FILTER_CONFIG_ENCODE_ENABLED;
+- if (encoder) exit(0);
+- else exit(1);
+- }
+- ], [he5_cv_hdf5_szip_can_encode=yes], [he5_cv_hdf5_szip_can_encode=no],)])
+-
+- if test ${he5_cv_hdf5_szip_can_encode} = "yes"; then
+- AC_DEFINE(HAVE_HDF5_SZIP_ENCODER, 1,
+- [Define if HDF5 has szip encoder filter])
+- AC_MSG_RESULT([yes])
+- else
+- AC_MSG_RESULT([no])
+- fi
+-
+- dnl Check if SZIP linked with HDF5 has the same configuration as SZIP given by --with-szlib option has
+- if test ${he5_cv_hdf5_szip_can_decode} = "no"; then
+- if test "X$HAVE_SZLIB" = "Xyes"; then
+- AC_MSG_ERROR([HDF5 was linked without SZIP, but --with-szlib was given])
+- fi
+- else
+- if test "X$HAVE_SZLIB" != "Xyes"; then
+- AC_MSG_ERROR([HDF5 was linked with SZIP, but --with-szlib was not given])
+- fi
+- if test ${he5_cv_szlib_functional} = "no"; then
+- AC_MSG_ERROR([SZIP specified in --with-szlib is not functional])
+- fi
+- if test ${he5_cv_hdf5_szip_can_encode} = "no"; then
+- if test ${he5_cv_szlib_can_encode} = "yes"; then
+- AC_MSG_ERROR([HDF5 was linked without SZIP encoder, but yours has SZIP encoder])
+- fi
+- else
+- if test ${he5_cv_szlib_can_encode} = "no"; then
+- AC_MSG_ERROR([HDF5 was linked with SZIP encoder, but yours does not have SZIP encoder])
+- fi
+- fi
+- fi
+-fi
+-
+ # Set CFLAGS to prevent AC_PROG_CC from setting it
+ CFLAGS=$CFLAGS
+
+@@ -584,14 +160,10 @@ AM_CONDITIONAL([INSTALL_INCLUDE_CONDITIONAL], [test "X$INSTALL_INCLUDE" = "Xyes"
+ AM_CONDITIONAL([F2CFORTRAN_CONDITIONAL], [test "X$F2CFORTRAN_MACRO" = "Xyes"])
+ AM_CONDITIONAL([F2CFORTRAN_90_CONDITIONAL], [test "X$F2CFORTRAN_90" = "Xyes"])
+ AM_CONDITIONAL([F2CFORTRAN_32PTR_CONDITIONAL], [test "X$F2CFORTRAN_32PTR" = "Xyes"])
+-AM_CONDITIONAL([SZIP_ENCODER_CONDITIONAL], [test "X$USE_SZIP_ENCODER" = "Xyes"])
+
+ AC_CONFIG_FILES([Makefile
+- include/Makefile
+- src/Makefile
+ gctp/Makefile
+ gctp/include/Makefile
+- gctp/src/Makefile
+- samples/Makefile])
++ gctp/src/Makefile])
+
+ AC_OUTPUT
+--
+2.5.0
+
--
2.5.0
^ permalink raw reply related [flat|nested] 16+ messages in thread
* Re: [PATCH] Add gctp
2016-06-17 12:40 [PATCH] Add gctp Thomas Danckaert
@ 2016-06-18 1:39 ` Leo Famulari
2016-06-18 9:05 ` Thomas Danckaert
0 siblings, 1 reply; 16+ messages in thread
From: Leo Famulari @ 2016-06-18 1:39 UTC (permalink / raw)
To: Thomas Danckaert; +Cc: guix-devel
On Fri, Jun 17, 2016 at 02:40:17PM +0200, Thomas Danckaert wrote:
> this is a patch to add the GCTP library. It seems the library is no longer
> maintained separately (“official” sources are gone), so this package
> downloads the HDF-EOS5 source, which contains GCTP, and patches the build to
> only build and install GCTP. (I'm packaging HDF-EOS5 later on)
Should we package GCTP separately in that case? Is it used by anything
besides HDF-EOS5? Or, should we just package HDF-EOS5?
We usually don't accept bundled code, but it sounds like GCTP no longer
exists as an independent project. Is that right?
Otherwise, it looks like we are forking GCTP and creating a new
distribution.
> It's not very elegant... An alternative solution would be to get the source
> package from, e.g. Debian, and build that (might involve less patching).
We do fetch a few things from Debian.
Here are some comments:
> Subject: [PATCH] gnu: Add gctp
We prefer to use complete sentences, with punctuation, even when they
are only 2 words long ;)
> * gnu/packages/maths.cm (gctp): New variable
>
> * guix/packages.scm (decompression-type): Modify by adding ".Z" suffix
> for gzipped files.
I believe this was addressed in commit 5257ab6de. Can you check?
> * gnu/packages/patches/gct-build-shared.patch: patch build system for
> shared builds.
We also capitalize the beginning of our sentences :)
> * gnu/packages/patches/gctp-remove-hdf-eos5.patch: don't build the
> hdf-eos5 library contained in the same archive.
>
> * gnu/packages/patches/gctp-fix-soname.patch: use a lower case soname.
> ---
> gnu/packages/maths.scm | 39 ++
> gnu/packages/patches/gctp-build-shared.patch | 84 +++++
> gnu/packages/patches/gctp-fix-soname.patch | 31 ++
> gnu/packages/patches/gctp-remove-hdf-eos5.patch | 482 ++++++++++++++++++++++++
> 4 files changed, 636 insertions(+)
> create mode 100644 gnu/packages/patches/gctp-build-shared.patch
> create mode 100644 gnu/packages/patches/gctp-fix-soname.patch
> create mode 100644 gnu/packages/patches/gctp-remove-hdf-eos5.patch
>
> diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
> index 3b860a9..9cd0554 100644
> --- a/gnu/packages/maths.scm
> +++ b/gnu/packages/maths.scm
> @@ -42,6 +42,8 @@
> #:use-module (guix build-system gnu)
> #:use-module (guix build-system r)
> #:use-module (gnu packages algebra)
> + #:use-module (gnu packages autotools)
> + #:use-module (gnu packages base)
> #:use-module (gnu packages bison)
> #:use-module (gnu packages boost)
> #:use-module (gnu packages check)
> @@ -408,6 +410,43 @@ plotting engine by third-party applications like Octave.")
> (license (license:fsf-free
> "http://gnuplot.cvs.sourceforge.net/gnuplot/gnuplot/Copyright"))))
>
> +(define-public gctp
> + (package
> + (name "gctp")
> + (version "1.0")
Is this the upstream version or is it arbitrary? I see that the HDF-EOS5
tarball is at version 1.15.
> + (source (origin
> + (method url-fetch)
> + (uri (string-append "ftp://edhs1.gsfc.nasa.gov/edhs/hdfeos5/latest_release/HDF-EOS5.1.15.tar.Z"))
> + (sha256
> + (base32
> + "1p83333nzzy8rn5chxlm0hrkjjnhh2w1ji8ac0f9q4xzg838i58i"))
> + (patches (search-patches "gctp-build-shared.patch" "gctp-remove-hdf-eos5.patch" "gctp-fix-soname.patch"))
> + ))
Some of these lines are too long. We like to keep them shorter than 80
characters whenever possible.
> + (native-inputs
> + `(("autoconf" ,autoconf)
> + ("automake" ,automake)
> + ("libtool" ,libtool)
> + ("coreutils" ,coreutils)))
> + (build-system gnu-build-system)
> + (arguments
> + `(#:configure-flags '("--enable-install-include")
> + #:phases
> + (modify-phases %standard-phases
> + (add-before
> + 'configure 'autogen
> + (lambda _
> + (and (zero? (system* "chmod" "-R" "u+w" ".")) ; archive is read-only...
We have a Scheme procedure for chmod. There are examples in
'gnu/packages'. Is this what required coreutils as a native-input?
> diff --git a/gnu/packages/patches/gctp-build-shared.patch b/gnu/packages/patches/gctp-build-shared.patch
In general, I think these patches need some more comments and
explanation of the various changes.
> new file mode 100644
> index 0000000..1139fbb
> --- /dev/null
> +++ b/gnu/packages/patches/gctp-build-shared.patch
> @@ -0,0 +1,84 @@
> +Allow shared build.
> +
> +---
> + Makefile.am | 6 ------
> + configure.ac | 12 ------------
> + include/HE5_HdfEosDef.h | 1 +
> + src/Makefile.am | 3 ++-
> + 4 files changed, 3 insertions(+), 19 deletions(-)
> +
> +diff --git a/Makefile.am b/Makefile.am
> +index 363bcfb..01ed024 100644
> +--- a/Makefile.am
> ++++ b/Makefile.am
> +@@ -3,13 +3,7 @@
> + # Include boilerplate
> + include $(top_srcdir)/config/include.am
> +
> +-# List of subdirectories.
> +-# Only build the testdrivers directory if configure detected that it's present.
> +-if TESTDRIVERS_CONDITIONAL
> +-TESTDRIVERS=testdrivers
> +-else
> + TESTDRIVERS=
> +-endif
What is the effect of this?
> +
> + if INSTALL_INCLUDE_CONDITIONAL
> + INCLUDE=include
> +diff --git a/configure.ac b/configure.ac
> +index 5d48b43..cfa9d4e 100644
> +--- a/configure.ac
> ++++ b/configure.ac
> +@@ -13,9 +13,6 @@ AC_CONFIG_AUX_DIR([config])
> + AM_INIT_AUTOMAKE([foreign])
> + AM_MAINTAINER_MODE
> +
> +-# Disable shared libraries (for now)
> +-AC_DISABLE_SHARED
Okay.
> +-
> + AM_PROG_LIBTOOL
> +
> + dnl ----------------------------------------------------------------------
> +@@ -597,13 +594,4 @@ AC_CONFIG_FILES([Makefile
> + gctp/src/Makefile
> + samples/Makefile])
> +
> +-if test "X$TESTDRIVERS_DIR" = "Xyes"; then
> +- AC_CONFIG_FILES([ testdrivers/Makefile
> +- testdrivers/grid/Makefile
> +- testdrivers/point/Makefile
> +- testdrivers/swath/Makefile
> +- testdrivers/threads/Makefile
> +- testdrivers/za/Makefile])
> +-fi
> +-
It's related to an earlier diff, but can you explain?
> + AC_OUTPUT
> +diff --git a/include/HE5_HdfEosDef.h b/include/HE5_HdfEosDef.h
> +index 9ed7881..abf0a90 100755
> +--- a/include/HE5_HdfEosDef.h
> ++++ b/include/HE5_HdfEosDef.h
> +@@ -24,6 +24,7 @@
> + #ifndef HE5_HDFEOSDEF_H_
> + #define HE5_HDFEOSDEF_H_
> +
> ++#define H5_USE_16_API 1
What is the significance of this definition?
> + #include <hdf5.h>
> +
> + #ifdef H5_USE_16_API
> +diff --git a/src/Makefile.am b/src/Makefile.am
> +index 76b1d4c..daf7ad8 100644
> +--- a/src/Makefile.am
> ++++ b/src/Makefile.am
> +@@ -10,7 +10,8 @@ INCLUDES=-I$(top_srcdir)/include/
> +
> + # Set LDFLAGS to allow the HDF-EOS library to use extern variables from
> + # HDF5
> +-LDFLAGS=-Wl,-single_module
> ++LDFLAGS+= -shrext .so
> ++LIBS+= -lhdf5_hl -lhdf5 -lm
Okay.
> +
> + # Build HDF-EOS5
> + lib_LTLIBRARIES=libhe5_hdfeos.la
> +--
> +2.5.0
> +
> diff --git a/gnu/packages/patches/gctp-fix-soname.patch b/gnu/packages/patches/gctp-fix-soname.patch
> new file mode 100644
> index 0000000..5a32970
> --- /dev/null
> +++ b/gnu/packages/patches/gctp-fix-soname.patch
> @@ -0,0 +1,31 @@
> +Make library name all-lowercase.
Is this a stylistic change or does it have some other effect?
> +
> +---
> + gctp/src/Makefile.am | 4 ++--
> + 1 file changed, 2 insertions(+), 2 deletions(-)
> +
> +diff --git a/gctp/src/Makefile.am b/gctp/src/Makefile.am
> +index 76ecf1c..97c2438 100755
> +--- a/gctp/src/Makefile.am
> ++++ b/gctp/src/Makefile.am
> +@@ -4,7 +4,7 @@
> + include $(top_srcdir)/config/include.am
> +
> + # Library to build
> +-lib_LTLIBRARIES = libGctp.la
> ++lib_LTLIBRARIES = libgctp.la
> +
> + ## Normally DEFAULT_INCLUDES is supplied by Automake, but one of the
> + ## directories included by default is $(top_builddir)/include, which
> +@@ -17,7 +17,7 @@ DEFAULT_INCLUDES = -I. -I$(srcdir)
> + INCLUDES=-I$(srcdir)/../include/
> +
> + # Library source files
> +-libGctp_la_SOURCES = gctp.c alberfor.c alberinv.c alconfor.c alconinv.c \
> ++libgctp_la_SOURCES = gctp.c alberfor.c alberinv.c alconfor.c alconinv.c \
> + azimfor.c aziminv.c bceafor.c bceainv.c br_gctp.c ceafor.c \
> + ceainv.c cproj.c eqconfor.c eqconinv.c equifor.c equiinv.c \
> + for_init.c gnomfor.c gnominv.c goodfor.c goodinv.c gvnspfor.c \
> +--
> +2.5.0
> +
> diff --git a/gnu/packages/patches/gctp-remove-hdf-eos5.patch b/gnu/packages/patches/gctp-remove-hdf-eos5.patch
> new file mode 100644
> index 0000000..4601c5f
> --- /dev/null
> +++ b/gnu/packages/patches/gctp-remove-hdf-eos5.patch
> @@ -0,0 +1,482 @@
> +From c206a99fc4692ef9ea48a11bbb9de8a7dd44a7f8 Mon Sep 17 00:00:00 2001
> +From: Thomas Danckaert <thomas.danckaert@gmail.com>
> +Date: Fri, 17 Jun 2016 07:55:58 +0200
> +Subject: [PATCH 1/2] Build only GCTP.
> +
> +---
> + Makefile.am | 2 +-
> + configure.ac | 430 +----------------------------------------------------------
> + 2 files changed, 2 insertions(+), 430 deletions(-)
430 deletions: If it works, then okay :)
^ permalink raw reply [flat|nested] 16+ messages in thread
* Re: [PATCH] Add gctp
2016-06-18 1:39 ` Leo Famulari
@ 2016-06-18 9:05 ` Thomas Danckaert
2016-06-21 6:35 ` Thomas Danckaert
2016-06-25 17:21 ` Leo Famulari
0 siblings, 2 replies; 16+ messages in thread
From: Thomas Danckaert @ 2016-06-18 9:05 UTC (permalink / raw)
To: guix-devel
From: Leo Famulari <leo@famulari.name>
Subject: Re: [PATCH] Add gctp
Date: Fri, 17 Jun 2016 21:39:26 -0400
> On Fri, Jun 17, 2016 at 02:40:17PM +0200, Thomas Danckaert wrote:
>> this is a patch to add the GCTP library. It seems the library is
>> no longer
>> maintained separately (“official” sources are gone), so this
>> package
>> downloads the HDF-EOS5 source, which contains GCTP, and patches
>> the build to
>> only build and install GCTP. (I'm packaging HDF-EOS5 later on)
>
> Should we package GCTP separately in that case? Is it used by
> anything
> besides HDF-EOS5? Or, should we just package HDF-EOS5?
The only other use I'm aware of is in HDF-EOS2, which is a separate
library from HDF-EOS5, built on HDF4 instead of HDF5, and which also
bundles gctp. I intend to package HDF-EOS2 as well, once HDF4 is
included.
> We usually don't accept bundled code, but it sounds like GCTP no
> longer
> exists as an independent project. Is that right?
That is my impression, too (broken urls and undeliverable e-mails).
The package is quite small anyway, so perhaps bundling with the 2
HDF-EOS libraries is acceptable?
> Here are some comments:
[ Style issues noted, I will take care of that. ]
>> +(define-public gctp
>> + (package
>> + (name "gctp")
>> + (version "1.0")
>
> Is this the upstream version or is it arbitrary? I see that the
> HDF-EOS5
> tarball is at version 1.15.
The archive does not contain an explicit version number or changelog
(it just says it's the “new C version of the GCTP” -- before that, it
seems there were some Fortran routines). I've also found a gctpc2.0
archive, which *does* have a changelog, and on closer inspection
(comparing the source of this package with comments from the
changelog from 2.0), it seems that this code corresponds to version
1.3... (though e.g. Debian also calls it 1.0). It's quite messy
actually. I'll see if HDF-EOS5 builds against gctp-2.0 (for which a
I've found a cleaner archive), and maybe package that instead...
> We have a Scheme procedure for chmod. There are examples in
> 'gnu/packages'. Is this what required coreutils as a native-input?
That's the reason indeed. I wasn't aware of the chmod procedure, I'll
adapt my package definition .
> In general, I think these patches need some more comments and
> explanation of the various changes.
I'll resubmit an improved patch.
Before I do that, though, I'll await your opinion on whether an
independent gctp package is actually needed or not.
Some other explanations in-line:
>> +diff --git a/Makefile.am b/Makefile.am
>> +index 363bcfb..01ed024 100644
>> +--- a/Makefile.am
>> ++++ b/Makefile.am
>> +@@ -3,13 +3,7 @@
>> + # Include boilerplate
>> + include $(top_srcdir)/config/include.am
>> +
>> +-# List of subdirectories.
>> +-# Only build the testdrivers directory if configure detected
>> that it's present.
>> +-if TESTDRIVERS_CONDITIONAL
>> +-TESTDRIVERS=testdrivers
>> +-else
>> + TESTDRIVERS=
>> +-endif
>
> What is the effect of this?
>
About this and the other “TESTDRIVERS”-related stuff:
When we run automake after patching the build, it needs the
“testdrivers” directory. This is a set of additional
tests/demonstration programs (HDF-EOS5 already contains tests in the
src/samples directory), which are distributed in a separate tarball
(the configure script will test if the testdrivers are there or not,
so they are optional in a “standard” build scenario). In order to
allow automake to complete, I removed all references to the
testdrivers in my patch. The alternative solution would be to
download 2 tarballs (source + testdrivers) and extract them in the
build directory. Removing the testdrivers was the easiest solution.
>> + AC_OUTPUT
>
>> +diff --git a/include/HE5_HdfEosDef.h b/include/HE5_HdfEosDef.h
>> +index 9ed7881..abf0a90 100755
>> +--- a/include/HE5_HdfEosDef.h
>> ++++ b/include/HE5_HdfEosDef.h
>> +@@ -24,6 +24,7 @@
>> + #ifndef HE5_HDFEOSDEF_H_
>> + #define HE5_HDFEOSDEF_H_
>> +
>> ++#define H5_USE_16_API 1
>
> What is the significance of this definition?
>
Actually this only affects the HDF-EOS5 package, and I now realize it
can be removed from this patchset. I was using the same patch for
shared library compilation in my HDF5 and GCTP packages... lazyness.
(The HDF5 API changed in version 1.8. Code written against previous
version (such as HDF-EOS5) needs this #define to link with newer
versions of HDF5.)
>> diff --git a/gnu/packages/patches/gctp-fix-soname.patch
>> b/gnu/packages/patches/gctp-fix-soname.patch
>> new file mode 100644
>> index 0000000..5a32970
>> --- /dev/null
>> +++ b/gnu/packages/patches/gctp-fix-soname.patch
>> @@ -0,0 +1,31 @@
>> +Make library name all-lowercase.
>
> Is this a stylistic change or does it have some other effect?
>
Otherwise the library is installed as “libGctp.so.0”, which seems
like an unconventional capitalization (?). Like this, users switching
from Debian & Co. will have a seamless experience ;-)
Thomas
^ permalink raw reply [flat|nested] 16+ messages in thread
* Re: [PATCH] Add gctp
2016-06-18 9:05 ` Thomas Danckaert
@ 2016-06-21 6:35 ` Thomas Danckaert
2016-06-25 17:21 ` Leo Famulari
1 sibling, 0 replies; 16+ messages in thread
From: Thomas Danckaert @ 2016-06-21 6:35 UTC (permalink / raw)
To: guix-devel
[-- Attachment #1: Type: Text/Plain, Size: 285 bytes --]
Hi Guix,
here's a new patch for gctp. This one takes the source for gctp 2.0, and patches it to add an autotools build configuration. I also had to add a patch to remove an override of 'sincos', which leads to an infinite recursion when calling sin/cos/sincos on my system.
Thomas
[-- Attachment #2: 0001-gnu-Add-gctp.patch --]
[-- Type: Text/X-Patch, Size: 6303 bytes --]
From 8b03b2edbaf26ed73001ab13ce2e51a3b9a4df53 Mon Sep 17 00:00:00 2001
From: Thomas Danckaert <thomas.danckaert@gmail.com>
Date: Fri, 17 Jun 2016 10:41:50 +0200
Subject: [PATCH] gnu: Add gctp.
* gnu/packages/maths.cm (gctp): New variable.
* gnu/packages/patches/gctp-autoconfiscate.patch: New file.
* gnu/packages/patches/gctp-sincos.patch: New file.
---
gnu/packages/maths.scm | 38 +++++++++++++
gnu/packages/patches/gctp-autoconfiscate.patch | 77 ++++++++++++++++++++++++++
gnu/packages/patches/gctp-sincos.patch | 22 ++++++++
3 files changed, 137 insertions(+)
create mode 100644 gnu/packages/patches/gctp-autoconfiscate.patch
create mode 100644 gnu/packages/patches/gctp-sincos.patch
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 3b860a9..0601619 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -42,6 +42,7 @@
#:use-module (guix build-system gnu)
#:use-module (guix build-system r)
#:use-module (gnu packages algebra)
+ #:use-module (gnu packages autotools)
#:use-module (gnu packages bison)
#:use-module (gnu packages boost)
#:use-module (gnu packages check)
@@ -408,6 +409,43 @@ plotting engine by third-party applications like Octave.")
(license (license:fsf-free
"http://gnuplot.cvs.sourceforge.net/gnuplot/gnuplot/Copyright"))))
+(define-public gctp
+ (package
+ (name "gctp")
+ (version "2.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri "http://www.nco.ncep.noaa.gov\
+/pmb/codes/nwprod/util/sorc/wgrib2.cd/grib2/gctpc20.tar.Z")
+ (sha256
+ (base32
+ "0sx69yljdy7r1v4idk7c19vlzplzqnpqf6z1p825l5w0ym1awzi1"))
+ (patches (search-patches "gctp-autoconfiscate.patch"
+ "gctp-sincos.patch"))
+ ))
+ (native-inputs
+ `(("autoconf" ,autoconf)
+ ("automake" ,automake)
+ ("libtool" ,libtool)))
+ (build-system gnu-build-system)
+ (arguments
+ `(#:phases
+ (modify-phases %standard-phases
+ (add-before
+ 'configure 'autogen
+ (lambda _ (zero? (system* "autoreconf" "--install")))))))
+ (synopsis "General Cartographic Transformation Package (GCTP)")
+ (description
+ "The General Cartographic Transformation Package (GCTP) is a system of
+software routines designed to permit the transformation of coordinate pairs
+from one map projection to another. The GCTP is the standard computer
+software used by the National Mapping Division for map projection
+computations.")
+ (home-page "http://gcmd.nasa.gov/records/USGS-GCTP.html")
+ (license (license:bsd-style
+ "http://gcmd.nasa.gov/records/USGS-GCTP.html"))))
+
(define-public hdf5
(package
(name "hdf5")
diff --git a/gnu/packages/patches/gctp-autoconfiscate.patch b/gnu/packages/patches/gctp-autoconfiscate.patch
new file mode 100644
index 0000000..83db0bf
--- /dev/null
+++ b/gnu/packages/patches/gctp-autoconfiscate.patch
@@ -0,0 +1,77 @@
+From 3f3c27f97edf864d7312e5f43daa386903b839c9 Mon Sep 17 00:00:00 2001
+From: Thomas Danckaert <thomas.danckaert@gmail.com>
+Date: Sat, 18 Jun 2016 17:58:47 +0200
+Subject: [PATCH] Minimal autotools build.
+
+---
+ Makefile.am | 1 +
+ configure.ac | 23 +++++++++++++++++++++++
+ source/Makefile.am | 18 ++++++++++++++++++
+ 3 files changed, 42 insertions(+)
+ create mode 100644 Makefile.am
+ create mode 100644 configure.ac
+ create mode 100644 source/Makefile.am
+
+diff --git a/Makefile.am b/Makefile.am
+new file mode 100644
+index 0000000..4b48b24
+--- /dev/null
++++ b/Makefile.am
+@@ -0,0 +1 @@
++SUBDIRS = source
+diff --git a/configure.ac b/configure.ac
+new file mode 100644
+index 0000000..e35d418
+--- /dev/null
++++ b/configure.ac
+@@ -0,0 +1,23 @@
++AC_PREREQ([2.69])
++AC_INIT([gctp], [2.0], [guix-devel@gnu.org])
++AM_INIT_AUTOMAKE(foreign)
++LT_INIT
++AC_CONFIG_SRCDIR([source/cproj.c])
++AC_CONFIG_HEADERS([config.h])
++
++# Checks for programs.
++AC_PROG_CC
++
++# Checks for libraries.
++AC_CHECK_LIB([m], [sin])
++
++# Checks for header files.
++AC_CHECK_HEADERS([stdlib.h string.h])
++
++# Checks for library functions.
++AC_CHECK_FUNCS([pow sqrt])
++
++AC_CONFIG_FILES([Makefile
++ source/Makefile])
++ # test/test_proj/Makefile])
++AC_OUTPUT
+diff --git a/source/Makefile.am b/source/Makefile.am
+new file mode 100644
+index 0000000..6de94ae
+--- /dev/null
++++ b/source/Makefile.am
+@@ -0,0 +1,18 @@
++lib_LTLIBRARIES = libgctp.la
++
++libgctp_la_SOURCES = gctp.c alberfor.c alberinv.c alconfor.c alconinv.c azimfor.c \
++ aziminv.c eqconfor.c eqconinv.c equifor.c equiinv.c gnomfor.c \
++ gnominv.c goodfor.c goodinv.c gvnspfor.c gvnspinv.c hamfor.c \
++ haminv.c imolwfor.c imolwinv.c lamazfor.c lamazinv.c merfor.c \
++ merinv.c millfor.c millinv.c molwfor.c molwinv.c obleqfor.c \
++ obleqinv.c omerfor.c omerinv.c orthfor.c orthinv.c polyfor.c \
++ polyinv.c psfor.c psinv.c robfor.c robinv.c sinfor.c sininv.c \
++ somfor.c sominv.c sterfor.c sterinv.c stplnfor.c stplninv.c \
++ tmfor.c tminv.c utmfor.c utminv.c vandgfor.c vandginv.c \
++ wivfor.c wivinv.c wviifor.c wviiinv.c for_init.c inv_init.c \
++ cproj.c report.c lamccfor.c lamccinv.c paksz.c untfz.c sphdz.c \
++ br_gctp.c
++
++include_HEADERS = cproj.h proj.h
++
++libgctp_la_LDFLAGS = -release 2.0.0
+--
+2.5.0
+
diff --git a/gnu/packages/patches/gctp-sincos.patch b/gnu/packages/patches/gctp-sincos.patch
new file mode 100644
index 0000000..b188fcb
--- /dev/null
+++ b/gnu/packages/patches/gctp-sincos.patch
@@ -0,0 +1,22 @@
+Don't override standard math function sincos.
+
+--- a/source/cproj.c 2016-06-20 12:29:19.746105496 +0200
++++ b/source/cproj.c 2016-06-20 12:29:11.782083820 +0200
+@@ -46,7 +46,7 @@
+ than calling each function separately. It is provided here for those
+ computer systems which don`t implement this function
+ ----------------------------------------------------*/
+-void sincos(val, sin_val, cos_val)
++/*void sincos(val, sin_val, cos_val)
+ double val;
+ double *sin_val;
+ double *cos_val;
+@@ -54,7 +54,7 @@
+ *sin_val = sin(val);
+ *cos_val = cos(val);
+ return;
+-}
++}*/
+
+ /* Function to eliminate roundoff errors in asin
+ ----------------------------------------------*/
--
2.5.0
^ permalink raw reply related [flat|nested] 16+ messages in thread
* Re: [PATCH] Add gctp
2016-06-18 9:05 ` Thomas Danckaert
2016-06-21 6:35 ` Thomas Danckaert
@ 2016-06-25 17:21 ` Leo Famulari
2016-06-27 19:07 ` Thomas Danckaert
1 sibling, 1 reply; 16+ messages in thread
From: Leo Famulari @ 2016-06-25 17:21 UTC (permalink / raw)
To: Thomas Danckaert; +Cc: guix-devel
On Sat, Jun 18, 2016 at 11:05:40AM +0200, Thomas Danckaert wrote:
> From: Leo Famulari <leo@famulari.name>
> Date: Fri, 17 Jun 2016 21:39:26 -0400
> > Should we package GCTP separately in that case? Is it used by anything
> > besides HDF-EOS5? Or, should we just package HDF-EOS5?
>
> The only other use I'm aware of is in HDF-EOS2, which is a separate library
> from HDF-EOS5, built on HDF4 instead of HDF5, and which also bundles gctp. I
> intend to package HDF-EOS2 as well, once HDF4 is included.
>
> > We usually don't accept bundled code, but it sounds like GCTP no longer
> > exists as an independent project. Is that right?
>
> That is my impression, too (broken urls and undeliverable e-mails). The
> package is quite small anyway, so perhaps bundling with the 2 HDF-EOS
> libraries is acceptable?
It sounds like you've tried emailing the authors for advice. Is that
right?
> The archive does not contain an explicit version number or changelog (it
> just says it's the “new C version of the GCTP” -- before that, it seems
> there were some Fortran routines). I've also found a gctpc2.0 archive,
> which *does* have a changelog, and on closer inspection (comparing the
> source of this package with comments from the changelog from 2.0), it seems
> that this code corresponds to version 1.3... (though e.g. Debian also calls
> it 1.0). It's quite messy actually. I'll see if HDF-EOS5 builds against
> gctp-2.0 (for which a I've found a cleaner archive), and maybe package that
> instead...
It looks like this gctp-2.0 is bundled with wgrib2 [0]. If there is no
independent repository for GCTP, I'd assume that GCTP is altered
independently for each application that it's bundled with. If so, I
think it makes sense to use the bundled copy of GCTP.
Otherwise, we are basically forking GCTP and creating a new distribution
of it, and that would require us to maintain it and test its integration
with HDF-EOS5.
What do people think? Should we use the bundled GCTP in HDF-EOS5 and,
later, HDF-EOS2?
[0]
http://www.nco.ncep.noaa.gov/pmb/codes/nwprod/util/sorc/wgrib2.cd/grib2/wgrib2/Introduction.txt
^ permalink raw reply [flat|nested] 16+ messages in thread
* Re: [PATCH] Add gctp
2016-06-25 17:21 ` Leo Famulari
@ 2016-06-27 19:07 ` Thomas Danckaert
2016-07-01 20:33 ` Leo Famulari
0 siblings, 1 reply; 16+ messages in thread
From: Thomas Danckaert @ 2016-06-27 19:07 UTC (permalink / raw)
To: leo; +Cc: guix-devel
From: Leo Famulari <leo@famulari.name>
Subject: Re: [PATCH] Add gctp
Date: Sat, 25 Jun 2016 13:21:31 -0400
> It sounds like you've tried emailing the authors for advice. Is that
> right?
I tried 2 addresses that I found in the source distributions, but
both addresses bounced.
> It looks like this gctp-2.0 is bundled with wgrib2 [0]. If there is
> no
> independent repository for GCTP, I'd assume that GCTP is altered
> independently for each application that it's bundled with. If so, I
> think it makes sense to use the bundled copy of GCTP.
>
> Otherwise, we are basically forking GCTP and creating a new
> distribution
> of it, and that would require us to maintain it and test its
> integration
> with HDF-EOS5.
Indeed, I believe GCTP is not maintained anymore, and each project
using it makes a few small adjustments. From the changelog, it seems
GCTP was last changed March 1998.
If there's not much interest to include HDF-EOS right now, I could
also maintain the libraries as a custom packages somewhere, for the
few people who need them. I think one of the great things about Guix
is that packages defined by users or third parties integrate so
easily with the main repository.
best,
Thomas
^ permalink raw reply [flat|nested] 16+ messages in thread
* Re: [PATCH] Add gctp
2016-06-27 19:07 ` Thomas Danckaert
@ 2016-07-01 20:33 ` Leo Famulari
2016-07-07 7:40 ` Thomas Danckaert
0 siblings, 1 reply; 16+ messages in thread
From: Leo Famulari @ 2016-07-01 20:33 UTC (permalink / raw)
To: Thomas Danckaert; +Cc: guix-devel
On Mon, Jun 27, 2016 at 09:07:54PM +0200, Thomas Danckaert wrote:
> Indeed, I believe GCTP is not maintained anymore, and each project using it
> makes a few small adjustments. From the changelog, it seems GCTP was last
> changed March 1998.
In this case, I think it's appropriate to use the bundled GCTP. What do
others think?
> If there's not much interest to include HDF-EOS right now, I could also
> maintain the libraries as a custom packages somewhere, for the few people
> who need them. I think one of the great things about Guix is that packages
> defined by users or third parties integrate so easily with the main
> repository.
I do think we should include HDF-EOS! If we choose to use the bundled
GCTP, are your earlier patches easily adaptable?
^ permalink raw reply [flat|nested] 16+ messages in thread
* Re: [PATCH] Add gctp
2016-07-01 20:33 ` Leo Famulari
@ 2016-07-07 7:40 ` Thomas Danckaert
2016-07-18 13:02 ` Ludovic Courtès
2016-07-18 21:47 ` Leo Famulari
0 siblings, 2 replies; 16+ messages in thread
From: Thomas Danckaert @ 2016-07-07 7:40 UTC (permalink / raw)
To: leo; +Cc: guix-devel
From: Leo Famulari <leo@famulari.name>
Subject: Re: [PATCH] Add gctp
Date: Fri, 1 Jul 2016 16:33:12 -0400
> On Mon, Jun 27, 2016 at 09:07:54PM +0200, Thomas Danckaert wrote:
>> Indeed, I believe GCTP is not maintained anymore, and each project using it
>> makes a few small adjustments. From the changelog, it seems GCTP was last
>> changed March 1998.
>
> In this case, I think it's appropriate to use the bundled GCTP. What do
> others think?
It's not a lot of work to submit a patch for HDF-EOS5 with the bundled GCTP, but I'm afraid that other packages which depend on two libraries that each bundle (a version of) GCTP (such as HDF-EOS2 and HDF-EOS5), will run into problems. There would be either a conflict due to multiple versions of libGctp, or, if we statically include GCTP in the libraries that use it, conflicting symbols when we link those libraries, no?
For this reason, maybe using a separate GCTP package, and adding a patch to projects that use it, is the best solution after all? Development of GCTP and most packages that depend on it seems to be mostly finished anyway, so maintaining the patches might not be that much work.
Thomas
^ permalink raw reply [flat|nested] 16+ messages in thread
* Re: [PATCH] Add gctp
2016-07-07 7:40 ` Thomas Danckaert
@ 2016-07-18 13:02 ` Ludovic Courtès
2016-07-18 21:47 ` Leo Famulari
1 sibling, 0 replies; 16+ messages in thread
From: Ludovic Courtès @ 2016-07-18 13:02 UTC (permalink / raw)
To: Thomas Danckaert; +Cc: guix-devel
Thomas Danckaert <post@thomasdanckaert.be> skribis:
> From: Leo Famulari <leo@famulari.name> Subject: Re: [PATCH] Add gctp
> Date: Fri, 1 Jul 2016 16:33:12 -0400
>
>> On Mon, Jun 27, 2016 at 09:07:54PM +0200, Thomas Danckaert wrote:
>>> Indeed, I believe GCTP is not maintained anymore, and each project
>>> using it makes a few small adjustments. From the changelog, it
>>> seems GCTP was last changed March 1998.
>> In this case, I think it's appropriate to use the bundled GCTP. What
>> do others think?
>
> It's not a lot of work to submit a patch for HDF-EOS5 with the bundled
> GCTP, but I'm afraid that other packages which depend on two libraries
> that each bundle (a version of) GCTP (such as HDF-EOS2 and HDF-EOS5),
> will run into problems. There would be either a conflict due to
> multiple versions of libGctp, or, if we statically include GCTP in the
> libraries that use it, conflicting symbols when we link those
> libraries, no?
>
> For this reason, maybe using a separate GCTP package, and adding a
> patch to projects that use it, is the best solution after all?
> Development of GCTP and most packages that depend on it seems to be
> mostly finished anyway, so maintaining the patches might not be that
> much work.
Leo, what’s your take on this? It seems we’ve forgotten about this
patch for too long already. :-)
Thanks,
Ludo’.
^ permalink raw reply [flat|nested] 16+ messages in thread
* Re: [PATCH] Add gctp
2016-07-07 7:40 ` Thomas Danckaert
2016-07-18 13:02 ` Ludovic Courtès
@ 2016-07-18 21:47 ` Leo Famulari
2016-09-15 17:08 ` Thomas Danckaert
1 sibling, 1 reply; 16+ messages in thread
From: Leo Famulari @ 2016-07-18 21:47 UTC (permalink / raw)
To: Thomas Danckaert; +Cc: guix-devel
On Thu, Jul 07, 2016 at 09:40:18AM +0200, Thomas Danckaert wrote:
> It's not a lot of work to submit a patch for HDF-EOS5 with the bundled
> GCTP, but I'm afraid that other packages which depend on two libraries
> that each bundle (a version of) GCTP (such as HDF-EOS2 and HDF-EOS5),
> will run into problems. There would be either a conflict due to
> multiple versions of libGctp, or, if we statically include GCTP in the
> libraries that use it, conflicting symbols when we link those
> libraries, no?
I'm not sure if there will be problems or not... it's unfortunately
beyond my level of expertise :) I've asked someone with more experience
than me to weigh in.
> For this reason, maybe using a separate GCTP package, and adding a
> patch to projects that use it, is the best solution after all?
> Development of GCTP and most packages that depend on it seems to be
> mostly finished anyway, so maintaining the patches might not be that
> much work.
Based on my experience with Guix so far, I think that maintaining our
own forks of 3rd party software is outside of the scope of the Guix
project. I think that the {nix,guix}-daemon is the only software for
which we do this.
If it's not possible to use the bundled GCTPs then we have to use an
external library, but I think it should be maintained outside of Guix.
As you say, it should not be much work to put it on a public Git repo or
to host a tarball, since the development is basically complete.
Too bad no other distros have already packaged it; often we can copy
them ;)
I'm sorry for the loooong delayed reply.
^ permalink raw reply [flat|nested] 16+ messages in thread
* Re: [PATCH] Add gctp
2016-07-18 21:47 ` Leo Famulari
@ 2016-09-15 17:08 ` Thomas Danckaert
2016-09-24 1:08 ` Leo Famulari
0 siblings, 1 reply; 16+ messages in thread
From: Thomas Danckaert @ 2016-09-15 17:08 UTC (permalink / raw)
To: guix-devel
[-- Attachment #1: Type: Text/Plain, Size: 942 bytes --]
Hi Guix,
I've cleaned up my gctp patch, following your advice:
From: Leo Famulari <leo@famulari.name>
Subject: Re: [PATCH] Add gctp
Date: Mon, 18 Jul 2016 17:47:23 -0400
> If it's not possible to use the bundled GCTPs then we have to use an
> external library, but I think it should be maintained outside of
> Guix.
> As you say, it should not be much work to put it on a public Git
> repo or
> to host a tarball, since the development is basically complete.
I took the contents of the gctpc20.tar.Z archive distributed with
wgrib2, added an autoconf-based build script, and published the
repository on Github. Changes are minor: I had to make some changes
to the test programs, and fix one input routine (int size mismatch
when reading an auxiliary binary file).
This version of the patch uses a release tarball published on github.
Is there a better place I can host a tarball (if not the repository
itself?).
best,
Thomas
[-- Attachment #2: 0001-gnu-Add-gctp.patch --]
[-- Type: Text/X-Patch, Size: 1675 bytes --]
From 442f902377c95d72b59d2311c78df2d403f02ea4 Mon Sep 17 00:00:00 2001
From: Thomas Danckaert <thomas.danckaert@gmail.com>
Date: Fri, 17 Jun 2016 10:41:50 +0200
Subject: [PATCH] gnu: Add gctp.
* gnu/packages/maths.cm (gctp): New variable.
---
gnu/packages/maths.scm | 24 ++++++++++++++++++++++++
1 file changed, 24 insertions(+)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 44a24ef..e275436 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -418,6 +418,30 @@ plotting engine by third-party applications like Octave.")
(license (license:fsf-free
"http://gnuplot.cvs.sourceforge.net/gnuplot/gnuplot/Copyright")))))
+(define-public gctp
+ (package
+ (name "gctp")
+ (version "2.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri "https://github.com/OkoSanto/GCTP/archive/v2.0.0.tar.gz")
+ (sha256
+ (base32
+ "0l9aqnqynh9laicn5dxf3rsb1n14xiks79wbyqccirzmjqd1c1x4"))))
+ (native-inputs
+ `(("fortran" ,gfortran)))
+ (build-system gnu-build-system)
+ (synopsis "General Cartographic Transformation Package (GCTP)")
+ (description
+ "The General Cartographic Transformation Package (GCTP) is a system of
+software routines designed to permit the transformation of coordinate pairs
+from one map projection to another. The GCTP is the standard computer
+software used by the National Mapping Division for map projection
+computations.")
+ (home-page "https://github.com/OkoSanto/GCTP")
+ (license 'license:public-domain))) ; https://www2.usgs.gov/laws/info_policies.html
+
(define-public hdf5
(package
(name "hdf5")
--
2.10.0
^ permalink raw reply related [flat|nested] 16+ messages in thread
* Re: [PATCH] Add gctp
2016-09-15 17:08 ` Thomas Danckaert
@ 2016-09-24 1:08 ` Leo Famulari
2016-09-24 19:49 ` Thomas Danckaert
0 siblings, 1 reply; 16+ messages in thread
From: Leo Famulari @ 2016-09-24 1:08 UTC (permalink / raw)
To: Thomas Danckaert; +Cc: guix-devel
On Thu, Sep 15, 2016 at 07:08:08PM +0200, Thomas Danckaert wrote:
> Hi Guix,
>
> I've cleaned up my gctp patch, following your advice:
>
> From: Leo Famulari <leo@famulari.name>
> Subject: Re: [PATCH] Add gctp
> Date: Mon, 18 Jul 2016 17:47:23 -0400
>
> > If it's not possible to use the bundled GCTPs then we have to use an
> > external library, but I think it should be maintained outside of Guix.
> > As you say, it should not be much work to put it on a public Git repo or
> > to host a tarball, since the development is basically complete.
>
> I took the contents of the gctpc20.tar.Z archive distributed with wgrib2,
> added an autoconf-based build script, and published the repository on
> Github. Changes are minor: I had to make some changes to the test programs,
> and fix one input routine (int size mismatch when reading an auxiliary
> binary file).
>
> This version of the patch uses a release tarball published on github. Is
> there a better place I can host a tarball (if not the repository itself?).
Wow, thank you! A GitHub tarball is fine if it works (and this one
does).
> + (version "2.0")
> + (source
> + (origin
> + (method url-fetch)
> + (uri "https://github.com/OkoSanto/GCTP/archive/v2.0.0.tar.gz")
The only thing I would like to change is this mismatch between the
version and the tarball name. Can we call it version 2.0.0?
Also, we should add a (file-name) field so that the downloaded tarball
has "gctp" in the name.
I can make these changes locally if you think they are okay.
^ permalink raw reply [flat|nested] 16+ messages in thread
* Re: [PATCH] Add gctp
2016-09-24 1:08 ` Leo Famulari
@ 2016-09-24 19:49 ` Thomas Danckaert
2016-09-27 17:38 ` Leo Famulari
0 siblings, 1 reply; 16+ messages in thread
From: Thomas Danckaert @ 2016-09-24 19:49 UTC (permalink / raw)
To: leo; +Cc: guix-devel
From: Leo Famulari <leo@famulari.name>
Subject: Re: [PATCH] Add gctp
Date: Fri, 23 Sep 2016 21:08:25 -0400
>> + (version "2.0")
>> + (source
>> + (origin
>> + (method url-fetch)
>> + (uri "https://github.com/OkoSanto/GCTP/archive/v2.0.0.tar.gz")
>
> The only thing I would like to change is this mismatch between the
> version and the tarball name. Can we call it version 2.0.0?
>
> Also, we should add a (file-name) field so that the downloaded tarball
> has "gctp" in the name.
>
> I can make these changes locally if you think they are okay.
Of course, go ahead!
Thanks for reviewing the patch(-es).
Thomas
^ permalink raw reply [flat|nested] 16+ messages in thread
* Re: [PATCH] Add gctp
2016-09-24 19:49 ` Thomas Danckaert
@ 2016-09-27 17:38 ` Leo Famulari
0 siblings, 0 replies; 16+ messages in thread
From: Leo Famulari @ 2016-09-27 17:38 UTC (permalink / raw)
To: Thomas Danckaert; +Cc: guix-devel
On Sat, Sep 24, 2016 at 09:49:56PM +0200, Thomas Danckaert wrote:
> From: Leo Famulari <leo@famulari.name>
> Subject: Re: [PATCH] Add gctp
> Date: Fri, 23 Sep 2016 21:08:25 -0400
>
> >> + (version "2.0")
> >> + (source
> >> + (origin
> >> + (method url-fetch)
> >> + (uri "https://github.com/OkoSanto/GCTP/archive/v2.0.0.tar.gz")
> >
> > The only thing I would like to change is this mismatch between the
> > version and the tarball name. Can we call it version 2.0.0?
> >
> > Also, we should add a (file-name) field so that the downloaded tarball
> > has "gctp" in the name.
> >
> > I can make these changes locally if you think they are okay.
>
> Of course, go ahead!
>
> Thanks for reviewing the patch(-es).
Great, pushed as 32f70e1f86141ed30f1026ea0cf8a4bd377004b0 !
>
> Thomas
^ permalink raw reply [flat|nested] 16+ messages in thread
end of thread, other threads:[~2016-09-27 17:38 UTC | newest]
Thread overview: 16+ messages (download: mbox.gz follow: Atom feed
-- links below jump to the message on this page --
2016-06-17 12:40 [PATCH] Add gctp Thomas Danckaert
2016-06-18 1:39 ` Leo Famulari
2016-06-18 9:05 ` Thomas Danckaert
2016-06-21 6:35 ` Thomas Danckaert
2016-06-25 17:21 ` Leo Famulari
2016-06-27 19:07 ` Thomas Danckaert
2016-07-01 20:33 ` Leo Famulari
2016-07-07 7:40 ` Thomas Danckaert
2016-07-18 13:02 ` Ludovic Courtès
2016-07-18 21:47 ` Leo Famulari
2016-09-15 17:08 ` Thomas Danckaert
2016-09-24 1:08 ` Leo Famulari
2016-09-24 19:49 ` Thomas Danckaert
2016-09-27 17:38 ` Leo Famulari
-- strict thread matches above, loose matches on Subject: below --
2016-06-17 12:41 Thomas Danckaert
2016-06-17 9:29 Thomas Danckaert
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