Bug#714365: [Debichem-devel] Bug#714365: src:openms: FTBFS against glpk 4.51-1
Greetings Sebastien,
thank you sooo much for your fix. I was in low internet connectivity
mode these last weeks.
I'll start packaging the new version of the software project and check
that the fix will be integrated upstream.
Cheers,
Filippo
On Thu, Aug 15, 2013 at 09:50:30PM +0200, Sébastien Villemot wrote:
Control: tags -1 + pending
Le vendredi 28 juin 2013 à 15:27 +0200, Sébastien Villemot a écrit :
Package: src:openms
Version: 1.9.0-4
openms fails to build from source against glpk 4.51-1, which is currently
available in experimental. A build log is attached to this report.
I have uploaded to DELAYED/5 a NMU fixing this issue. The debdiff is
attached. Please let me know if I should delay the upload longer.
Cheers,
diff -Nru openms-1.9.0/debian/changelog openms-1.9.0/debian/changelog
--- openms-1.9.0/debian/changelog 2013-03-29 13:09:59.0 +0100
+++ openms-1.9.0/debian/changelog 2013-08-15 17:54:35.0 +0200
@@ -1,3 +1,11 @@
+openms (1.9.0-4.1) unstable; urgency=low
+
+ * Non-maintainer upload.
+ * glpk-4.49.patch: new patch, fixes FTBFS against recent versions of
+GLPK. (Closes: #714365)
+
+ -- Sébastien Villemot sebast...@debian.org Thu, 15 Aug 2013 17:54:30
+0200
+
openms (1.9.0-4) unstable; urgency=low
* debian/rules: reinstate the .NOTPARALLEL: directive to preclude
diff -Nru openms-1.9.0/debian/patches/glpk-4.49.patch
openms-1.9.0/debian/patches/glpk-4.49.patch
--- openms-1.9.0/debian/patches/glpk-4.49.patch 1970-01-01
01:00:00.0 +0100
+++ openms-1.9.0/debian/patches/glpk-4.49.patch 2013-08-15
17:51:57.0 +0200
@@ -0,0 +1,19 @@
+Description: Fix FTBFS against recent versions of GLPK
+Author: Sébastien Villemot sebast...@debian.org
+Bug-Debian: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=714365
+Forwarded: no
+Last-Update: 2013-08-15
+---
+This patch header follows DEP-3: http://dep.debian.net/deps/dep3/
+--- a/include/OpenMS/DATASTRUCTURES/LPWrapper.h
b/include/OpenMS/DATASTRUCTURES/LPWrapper.h
+@@ -36,7 +36,8 @@
+ // only declare them here
+ class CoinModel;
+ #define GLP_PROB_DEFINED
+-typedef struct { double _opaque_prob[100]; } glp_prob;
++struct glp_prob;
++typedef struct glp_prob glp_prob;
+
+ namespace OpenMS
+ {
diff -Nru openms-1.9.0/debian/patches/series
openms-1.9.0/debian/patches/series
--- openms-1.9.0/debian/patches/series2013-03-29 13:09:59.0
+0100
+++ openms-1.9.0/debian/patches/series2013-08-15 17:43:54.0
+0200
@@ -3,3 +3,4 @@
topp-documenter-patch-from-stephan-aiche.patch
allow-recent-versions-find-libbost-and-force-shared-lib-use.patch
force-use-shared-object-libs-upon-linking.patch
+glpk-4.49.patch
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--
--
Filippo Rusconi, PhD - public crypto key C78F687C @ pgp.mit.edu
Researcher at CNRS and Debian Developer lopi...@debian.org
Author of ``massXpert'' at http://www.massxpert.org
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Bug#714365: src:openms: FTBFS against glpk 4.51-1
Control: tags -1 + pending
Le vendredi 28 juin 2013 à 15:27 +0200, Sébastien Villemot a écrit :
Package: src:openms
Version: 1.9.0-4
openms fails to build from source against glpk 4.51-1, which is currently
available in experimental. A build log is attached to this report.
I have uploaded to DELAYED/5 a NMU fixing this issue. The debdiff is
attached. Please let me know if I should delay the upload longer.
Cheers,
--
.''`.Sébastien Villemot
: :' :Debian Developer
`. `' http://www.dynare.org/sebastien
`- GPG Key: 4096R/381A7594
diff -Nru openms-1.9.0/debian/changelog openms-1.9.0/debian/changelog
--- openms-1.9.0/debian/changelog 2013-03-29 13:09:59.0 +0100
+++ openms-1.9.0/debian/changelog 2013-08-15 17:54:35.0 +0200
@@ -1,3 +1,11 @@
+openms (1.9.0-4.1) unstable; urgency=low
+
+ * Non-maintainer upload.
+ * glpk-4.49.patch: new patch, fixes FTBFS against recent versions of
+GLPK. (Closes: #714365)
+
+ -- Sébastien Villemot sebast...@debian.org Thu, 15 Aug 2013 17:54:30 +0200
+
openms (1.9.0-4) unstable; urgency=low
* debian/rules: reinstate the .NOTPARALLEL: directive to preclude
diff -Nru openms-1.9.0/debian/patches/glpk-4.49.patch openms-1.9.0/debian/patches/glpk-4.49.patch
--- openms-1.9.0/debian/patches/glpk-4.49.patch 1970-01-01 01:00:00.0 +0100
+++ openms-1.9.0/debian/patches/glpk-4.49.patch 2013-08-15 17:51:57.0 +0200
@@ -0,0 +1,19 @@
+Description: Fix FTBFS against recent versions of GLPK
+Author: Sébastien Villemot sebast...@debian.org
+Bug-Debian: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=714365
+Forwarded: no
+Last-Update: 2013-08-15
+---
+This patch header follows DEP-3: http://dep.debian.net/deps/dep3/
+--- a/include/OpenMS/DATASTRUCTURES/LPWrapper.h
b/include/OpenMS/DATASTRUCTURES/LPWrapper.h
+@@ -36,7 +36,8 @@
+ // only declare them here
+ class CoinModel;
+ #define GLP_PROB_DEFINED
+-typedef struct { double _opaque_prob[100]; } glp_prob;
++struct glp_prob;
++typedef struct glp_prob glp_prob;
+
+ namespace OpenMS
+ {
diff -Nru openms-1.9.0/debian/patches/series openms-1.9.0/debian/patches/series
--- openms-1.9.0/debian/patches/series 2013-03-29 13:09:59.0 +0100
+++ openms-1.9.0/debian/patches/series 2013-08-15 17:43:54.0 +0200
@@ -3,3 +3,4 @@
topp-documenter-patch-from-stephan-aiche.patch
allow-recent-versions-find-libbost-and-force-shared-lib-use.patch
force-use-shared-object-libs-upon-linking.patch
+glpk-4.49.patch
signature.asc
Description: This is a digitally signed message part
Bug#714365: src:openms: FTBFS against glpk 4.51-1
Control: tags -1 + patch
Le vendredi 28 juin 2013 à 15:27 +0200, Sébastien Villemot a écrit :
Package: src:openms
Version: 1.9.0-4
openms fails to build from source against glpk 4.51-1, which is currently
available in experimental. A build log is attached to this report.
I attach a patch that fixes this issue.
--
.''`.Sébastien Villemot
: :' :Debian Developer
`. `' http://www.dynare.org/sebastien
`- GPG Key: 4096R/381A7594
--- a/include/OpenMS/DATASTRUCTURES/LPWrapper.h
+++ b/include/OpenMS/DATASTRUCTURES/LPWrapper.h
@@ -36,7 +36,8 @@
// only declare them here
class CoinModel;
#define GLP_PROB_DEFINED
-typedef struct { double _opaque_prob[100]; } glp_prob;
+struct glp_prob;
+typedef struct glp_prob glp_prob;
namespace OpenMS
{
signature.asc
Description: This is a digitally signed message part
Bug#714365: src:openms: FTBFS against glpk 4.51-1
Package: src:openms Version: 1.9.0-4 Severity: important Usertags: glpk Dear Maintainer, openms fails to build from source against glpk 4.51-1, which is currently available in experimental. A build log is attached to this report. The new version of glpk introduces several API changes, most of which are described in the NEWS file coming with the package. Note that the severity of the present bug report will be raised once the new version of glpk is uploaded to sid. Cheers, -- .''`.Sébastien Villemot : :' :Debian Developer `. `' http://www.dynare.org/sebastien `- GPG Key: 4096R/381A7594 openms_1.9.0-4_amd64.build.xz Description: Binary data signature.asc Description: Digital signature
