Your message dated Sun, 02 Jun 2013 09:49:48 +0000
with message-id <[email protected]>
and subject line Bug#710364: fixed in saint 2.3.4+dfsg-2
has caused the Debian Bug report #710364,
regarding saint: fails to build with ld --as-needed
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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--
710364: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=710364
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: saint
Version: 2.3.4+dfsg-1
Severity: wishlist
Tags: patch
saint fails to build with ld --as-needed
this flag requires libraries to be placed after objects needing
their symbols.
this causes build failures in ubuntu:
gcc -lm -lgsl -lgslcblas -Wl,-Bsymbolic-functions -Wl,-z,relro
/tmp/buildd/saint-2.3.4+dfsg/build/*.o -o
/tmp/buildd/saint-2.3.4+dfsg/bin/saint-reformat
/tmp/buildd/saint-2.3.4+dfsg/build/initdata.o: In function `reformat_data':
/tmp/buildd/saint-2.3.4+dfsg/src/SAINTreformat/initdata.c:305: undefined
reference to `gsl_sort
attached patch fixes the issue.
Description: fix build failure with ld --as-needed
libraries need to be placed after objects needing them
--- a/Makefile
+++ b/Makefile
@@ -43,7 +43,7 @@ all: makeDirs \
saint-reformat:
$(CC) $(CFLAGS) -c $(SRC)/SAINTreformat/*.c $(SRC)/SAINTreformat/*.h
mv *.o $(BUILD)
- $(CC) $(LIBS) $(LDFLAGS) $(BUILD)/*.o -o $(TARGET)/saint-reformat
+ $(CC) $(LDFLAGS) $(BUILD)/*.o -o $(TARGET)/saint-reformat $(LIBS)
rm $(BUILD)/*.o
@echo
@echo
@@ -52,7 +52,7 @@ saint-reformat:
saint-spc-noctrl-matrix:
$(CC) $(CFLAGS) -c $(SRC)/SAINTspc-noctrl-matrix/*.c $(SRC)/SAINTspc-noctrl-matrix/*.h
mv *.o $(BUILD)
- $(CC) $(LIBS) $(LDFLAGS) $(BUILD)/*.o -o $(TARGET)/saint-spc-noctrl-matrix
+ $(CC) $(LDFLAGS) $(BUILD)/*.o -o $(TARGET)/saint-spc-noctrl-matrix $(LIBS)
rm $(BUILD)/*.o
@echo
@echo
@@ -60,7 +60,7 @@ saint-spc-noctrl-matrix:
saint-spc-noctrl:
$(CC) $(CFLAGS) -c $(SRC)/SAINTspc-noctrl/*.c $(SRC)/SAINTspc-noctrl/*.h
mv *.o $(BUILD)
- $(CC) $(LIBS) $(LDFLAGS) $(BUILD)/*.o -o $(TARGET)/saint-spc-noctrl
+ $(CC) $(LDFLAGS) $(BUILD)/*.o -o $(TARGET)/saint-spc-noctrl $(LIBS)
rm $(BUILD)/*.o
@echo
@echo
@@ -69,7 +69,7 @@ saint-spc-noctrl:
saint-spc-ctrl:
$(CC) $(CFLAGS) -c $(SRC)/SAINTspc-ctrl/*.c $(SRC)/SAINTspc-ctrl/*.h
mv *.o $(BUILD)
- $(CC) $(LIBS) $(LDFLAGS) $(BUILD)/*.o -o $(TARGET)/saint-spc-ctrl
+ $(CC) $(LDFLAGS) $(BUILD)/*.o -o $(TARGET)/saint-spc-ctrl $(LIBS)
rm $(BUILD)/*.o
@echo
@echo
@@ -78,7 +78,7 @@ saint-spc-ctrl:
saint-int-ctrl:
$(CC) $(CFLAGS) -c $(SRC)/SAINTint-ctrl/*.c $(SRC)/SAINTint-ctrl/*.h
mv *.o $(BUILD)
- $(CC) $(LIBS) $(LDFLAGS) $(BUILD)/*.o -o $(TARGET)/saint-int-ctrl
+ $(CC) $(LDFLAGS) $(BUILD)/*.o -o $(TARGET)/saint-int-ctrl $(LIBS)
rm $(BUILD)/*.o
@echo
@echo
--- End Message ---
--- Begin Message ---
Source: saint
Source-Version: 2.3.4+dfsg-2
We believe that the bug you reported is fixed in the latest version of
saint, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Thorsten Alteholz <[email protected]> (supplier of updated saint package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA1
Format: 1.8
Date: Sat, 01 Jun 2013 22:00:00 +0200
Source: saint
Binary: saint
Architecture: source amd64
Version: 2.3.4+dfsg-2
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Thorsten Alteholz <[email protected]>
Description:
saint - Significance Analysis of INTeractome
Closes: 710364
Changes:
saint (2.3.4+dfsg-2) unstable; urgency=low
.
* add patch ld-as-needed.patch from Julian Taylor (Closes: #710364)
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--- End Message ---
