[med-svn] [Git][med-team/libgclib][master] 8 commits: Remove autopkgtest boilerplate

Andreas Tille gitlab at salsa.debian.org
Thu Jun 13 22:25:12 BST 2019 


Andreas Tille pushed to branch master at Debian Med / gclib


Commits:
09a46f38 by Andreas Tille at 2019-06-13T20:26:52Z
Remove autopkgtest boilerplate

- - - - -
0eae0790 by Andreas Tille at 2019-06-13T20:27:35Z
Add symbols file

- - - - -
2d1e7203 by Andreas Tille at 2019-06-13T20:42:36Z
Explain source files that are included into the library

- - - - -
0dfef862 by Andreas Tille at 2019-06-13T20:44:41Z
delete header files of not compiled C++ source files

- - - - -
a0d653f7 by Andreas Tille at 2019-06-13T20:44:56Z
Do not include gtest.cpp into library, build mdtest.cpp

- - - - -
37c7fbb9 by Andreas Tille at 2019-06-13T21:08:07Z
Try to build mdtest but failed.

- - - - -
8154392e by Andreas Tille at 2019-06-13T21:14:58Z
Fix symbols file name

- - - - -
6572cc68 by Andreas Tille at 2019-06-13T21:24:44Z
patch from dh_makeshlibs

- - - - -


8 changed files:

- + debian/README.source
- − debian/README.test
- debian/control
- + debian/libgclib0.symbols
- debian/patches/autoconf.patch
- debian/rules
- − debian/tests/control
- − debian/tests/run-unit-test


Changes:

=====================================
debian/README.source
=====================================
@@ -0,0 +1,31 @@
+gclib for Debian
+================
+
+The final target which needs gclib is gffread.  This build the files
+
+  GBase.cpp
+  GArgs.cpp
+  GFaSeqGet.cpp
+  gdna.cpp
+  codons.cpp
+  gff.cpp
+  GStr.cpp
+  GFastaIndex.cpp
+  gff_utils.cpp
+
+To build proper libraries some rudimentary automake code was added as
+quilt patch.  Since the gclib source contains more C++ code that might
+be useful as well all those C++ file except the tests and the following
+source files are built and included into the library:
+
+  GBam.cpp:  This needs bam.h and sam.h while it needs to be clarified
+             from what project these header files are used
+  gdimg.cpp: This would introduce an unneeded dependency from libgd-dev
+
+
+FIXME: I tried to build mdtest but linking it against the just build
+library does not work the way I tried.  Some hint from someone who
+knows automake better than me might be helpful.
+
+
+ -- Andreas Tille <tille at debian.org>  Thu, 18 Apr 2019 12:54:42 +0200


=====================================
debian/README.test deleted
=====================================
@@ -1,8 +0,0 @@
-Notes on how this package can be tested.
-────────────────────────────────────────
-
-This package can be tested by running the provided test:
-
-    sh run-unit-test
-
-in order to confirm its integrity.


=====================================
debian/control
=====================================
@@ -5,8 +5,7 @@ Uploaders: Steffen Moeller <moeller at debian.org>,
 Section: science
 Priority: optional
 Build-Depends: debhelper (>= 12~),
-               d-shlibs,
-               libgd-dev
+               d-shlibs
 Standards-Version: 4.3.0
 Vcs-Browser: https://salsa.debian.org/med-team/libgclib
 Vcs-Git: https://salsa.debian.org/med-team/libgclib.git


=====================================
debian/libgclib0.symbols
=====================================
@@ -0,0 +1,609 @@
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+ _ZN5GListI9GXAlnInfoE18DefaultCompareProcEPvS2_ at Base 0.11.2
+ _ZN5GPVecI11GffNameInfoE15DefaultFreeProcEPv at Base 0.11.2
+ _ZN5GPVecI5GASeqE15DefaultFreeProcEPv at Base 0.11.2
+ _ZN5GPVecI6GXBandE15DefaultFreeProcEPv at Base 0.11.2
+ _ZN5GPVecI6GXSeedE15DefaultFreeProcEPv at Base 0.11.2
+ _ZN5GPVecI6GffObjE15DefaultFreeProcEPv at Base 0.11.2
+ _ZN5GPVecI6NucOriE15DefaultFreeProcEPv at Base 0.11.2
+ _ZN5GPVecI7GffAttrE15DefaultFreeProcEPv at Base 0.11.2
+ _ZN5GPVecI7GffExonE15DefaultFreeProcEPv at Base 0.11.2
+ _ZN5GPVecI8SeqDelOpE15DefaultFreeProcEPv at Base 0.11.2
+ _ZN5GPVecI9GFastaRecE15DefaultFreeProcEPv at Base 0.11.2
+ _ZN5GPVecI9GXAlnInfoE15DefaultFreeProcEPv at Base 0.11.2
+ _ZN6GfList8finalizeEP9GffReader at Base 0.11.2
+ _ZN6GffObj10getSplicedEP9GFaSeqGetbPiPjS3_P12GMapSegmentsb at Base 0.11.2
+ _ZN6GffObj10parseAttrsERP8GffAttrsPcbb at Base 0.11.2
+ _ZN6GffObj10removeAttrEPKcS1_ at Base 0.11.2
+ _ZN6GffObj10removeAttrEiPKc at Base 0.11.2
+ _ZN6GffObj10removeExonEP7GffExon at Base 0.11.2
+ _ZN6GffObj10removeExonEi at Base 0.11.2
+ _ZN6GffObj10setRefNameEPKc at Base 0.11.2
+ _ZN6GffObj11transferCDSEP7GffExon at Base 0.11.2
+ _ZN6GffObj12getUnsplicedEP9GFaSeqGetPiP12GMapSegments at Base 0.11.2
+ _ZN6GffObj12printGxfExonEP8_IO_FILEPKcS3_bP7GffExonbbPci at Base 0.11.2
+ _ZN6GffObj12printSummaryEP8_IO_FILE at Base 0.11.2
+ _ZN6GffObj13expandSegmentER5GListI7GffExonEijja at Base 0.11.2
+ _ZN6GffObj13printExonListEP8_IO_FILE at Base 0.11.2
+ _ZN6GffObj14decodeHexCharsEPcPKci at Base 0.11.2
+ _ZN6GffObj14exonOverlapIdxER5GListI7GffExonEjjPii at Base 0.11.2
+ _ZN6GffObj14removeExonAttrER7GffExonPKcS3_ at Base 0.11.2
+ _ZN6GffObj14removeExonAttrER7GffExoniPKc at Base 0.11.2
+ _ZN6GffObj14setFeatureNameEPKc at Base 0.11.2
+ _ZN6GffObj14updateCDSPhaseER5GListI7GffExonE at Base 0.11.2
+ _ZN6GffObj15reduceExonAttrsER5GListI7GffExonE at Base 0.11.2
+ _ZN6GffObj19processGeneSegmentsEP9GffReader at Base 0.11.2
+ _ZN6GffObj5namesE at Base 0.11.2
+ _ZN6GffObj6setCDSEPS_ at Base 0.11.2
+ _ZN6GffObj6setCDSEjjc at Base 0.11.2
+ _ZN6GffObj7addAttrEPKcS1_ at Base 0.11.2
+ _ZN6GffObj7addExonER5GListI7GffExonER7GffLinea at Base 0.11.2
+ _ZN6GffObj7addExonEjjac8GffScoreP5GListI7GffExonE at Base 0.11.2
+ _ZN6GffObj8finalizeEP9GffReader at Base 0.11.2
+ _ZN6GffObj8printBEDEP8_IO_FILEbPci at Base 0.11.2
+ _ZN6GffObj8printGxfEP8_IO_FILE12GffPrintModePKcS4_b at Base 0.11.2
+ _ZN6GffObj8readExonER9GffReaderR7GffLine at Base 0.11.2
+ _ZN6GffObj9copyAttrsEPS_ at Base 0.11.2
+ _ZN6GffObj9getCDSegsER4GVecI7GffExonE at Base 0.11.2
+ _ZN6GffObj9printGTabEP8_IO_FILEPPc at Base 0.11.2
+ _ZN6GffObj9whichExonEjP5GListI7GffExonE at Base 0.11.2
+ _ZN6GffObjC1ER9GffReaderR7BEDLine at Base 0.11.2
+ _ZN6GffObjC1ER9GffReaderR7GffLine at Base 0.11.2
+ _ZN6GffObjC2ER9GffReaderR7BEDLine at Base 0.11.2
+ _ZN6GffObjC2ER9GffReaderR7GffLine at Base 0.11.2
+ _ZN7BEDLineC1EP9GffReaderPKc at Base 0.11.2
+ _ZN7BEDLineC2EP9GffReaderPKc at Base 0.11.2
+ _ZN7GSocket12getLocalPortEv at Base 0.11.2
+ _ZN7GSocket12setLocalPortEt at Base 0.11.2
+ _ZN7GSocket14resolveServiceERK4GStrS2_ at Base 0.11.2
+ _ZN7GSocket15getLocalAddressEv at Base 0.11.2
+ _ZN7GSocket22setLocalAddressAndPortERK4GStrt at Base 0.11.2
+ _ZN7GSocket7cleanUpEv at Base 0.11.2
+ _ZN7GSocketC1Eii at Base 0.11.2
+ _ZN7GSocketC2Eii at Base 0.11.2
+ _ZN7GSocketD1Ev at Base 0.11.2
+ _ZN7GSocketD2Ev at Base 0.11.2
+ _ZN7GSubSeq5setupEjiiiij at Base 0.11.2
+ _ZN7GThread11num_createdE at Base 0.11.2
+ _ZN7GThread14update_counterEiPS_ at Base 0.11.2
+ _ZN7GThread16wrapper_functionEPv at Base 0.11.2
+ _ZN7GThread20hardware_concurrencyEv at Base 0.11.2
+ _ZN7GThread4joinEv at Base 0.11.2
+ _ZN7GThread6detachEv at Base 0.11.2
+ _ZN7GThread8tcounterE at Base 0.11.2
+ _ZN7GThread8wait_allEv at Base 0.11.2
+ _ZN7GThread9initStartEPvm at Base 0.11.2
+ _ZN7GThread9kickStartEPFvPvES0_m at Base 0.11.2
+ _ZN7GThread9kickStartEPFvR11GThreadDataEPvm at Base 0.11.2
+ _ZN7GThreadC1EPFvPvES0_m at Base 0.11.2
+ _ZN7GThreadC1EPFvR11GThreadDataEPvm at Base 0.11.2
+ _ZN7GThreadC2EPFvPvES0_m at Base 0.11.2
+ _ZN7GThreadC2EPFvR11GThreadDataEPvm at Base 0.11.2
+ _ZN7GThreadD1Ev at Base 0.11.2
+ _ZN7GThreadD2Ev at Base 0.11.2
+ _ZN7GffLine14extractGFFAttrERPcPKcS3_bbPib at Base 0.11.2
+ _ZN7GffLine16parseSegmentListER4GVecI4GSegEPc at Base 0.11.2
+ _ZN7GffLineC1EP9GffReaderPKc at Base 0.11.2
+ _ZN7GffLineC2EP9GffReaderPKc at Base 0.11.2
+ _ZN8GCdbRead4findEPKc at Base 0.11.2
+ _ZN8GCdbRead4readEPcjj at Base 0.11.2
+ _ZN8GCdbRead5matchEPKcjj at Base 0.11.2
+ _ZN8GCdbRead8findnextEPKcj at Base 0.11.2
+ _ZN8GCdbReadC1EPc at Base 0.11.2
+ _ZN8GCdbReadC1Ei at Base 0.11.2
+ _ZN8GCdbReadC2EPc at Base 0.11.2
+ _ZN8GCdbReadC2Ei at Base 0.11.2
+ _ZN8GCdbReadD1Ev at Base 0.11.2
+ _ZN8GCdbReadD2Ev at Base 0.11.2
+ _ZN8GCdbYank12getRecordPosEPKcPj at Base 0.11.2
+ _ZN8GCdbYank9getRecordEPKcR8FastaSeqPFiciPS2_E at Base 0.11.2
+ _ZN8GCdbYankC1EPKcS1_ at Base 0.11.2
+ _ZN8GCdbYankC2EPKcS1_ at Base 0.11.2
+ _ZN8GCdbYankD1Ev at Base 0.11.2
+ _ZN8GCdbYankD2Ev at Base 0.11.2
+ _ZN9GCDBuffer3getEPcj at Base 0.11.2
+ _ZN9GCDBuffer3putEPcj at Base 0.11.2
+ _ZN9GCDBuffer4bgetEPcj at Base 0.11.2
+ _ZN9GCDBuffer4copyEPS_ at Base 0.11.2
+ _ZN9GCDBuffer4feedEv at Base 0.11.2
+ _ZN9GCDBuffer4peekEv at Base 0.11.2
+ _ZN9GCDBuffer4putsEPc at Base 0.11.2
+ _ZN9GCDBuffer4seekEj at Base 0.11.2
+ _ZN9GCDBuffer5flushEv at Base 0.11.2
+ _ZN9GCDBuffer7getthisEPcj at Base 0.11.2
+ _ZN9GCDBuffer7oneReadEPcj at Base 0.11.2
+ _ZN9GCDBuffer8putalignEPcj at Base 0.11.2
+ _ZN9GCDBuffer8putflushEPcj at Base 0.11.2
+ _ZN9GCDBuffer9putsalignEPc at Base 0.11.2
+ _ZN9GCDBuffer9putsflushEPc at Base 0.11.2
+ _ZN9GCDBuffer9write_allEPcj at Base 0.11.2
+ _ZN9GCdbWrite3addEPKcPcj at Base 0.11.2
+ _ZN9GCdbWrite6addendEjjj at Base 0.11.2
+ _ZN9GCdbWrite6addrecEPKcjPcj at Base 0.11.2
+ _ZN9GCdbWrite6finishEv at Base 0.11.2
+ _ZN9GCdbWrite7posplusEj at Base 0.11.2
+ _ZN9GCdbWrite8addbeginEjj at Base 0.11.2
+ _ZN9GCdbWriteC1EPc at Base 0.11.2
+ _ZN9GCdbWriteC1Ei at Base 0.11.2
+ _ZN9GCdbWriteC2EPc at Base 0.11.2
+ _ZN9GCdbWriteC2Ei at Base 0.11.2
+ _ZN9GCdbWriteD1Ev at Base 0.11.2
+ _ZN9GCdbWriteD2Ev at Base 0.11.2
+ _ZN9GFaSeqGet10loadsubseqEjRi at Base 0.11.2
+ _ZN9GFaSeqGet12initialParseElb at Base 0.11.2
+ _ZN9GFaSeqGet5finitEPKclb at Base 0.11.2
+ _ZN9GFaSeqGet6subseqEjRi at Base 0.11.2
+ _ZN9GFaSeqGet9copyRangeEjjbb at Base 0.11.2
+ _ZN9GFaSeqGetC1EP8_IO_FILElb at Base 0.11.2
+ _ZN9GFaSeqGetC1EPKcjlii at Base 0.11.2
+ _ZN9GFaSeqGetC2EP8_IO_FILElb at Base 0.11.2
+ _ZN9GFaSeqGetC2EPKcjlii at Base 0.11.2
+ _ZN9GSeqAlign10ErrZeroCovEi at Base 0.11.2
+ _ZN9GSeqAlign10removeBaseEP5GASeqi at Base 0.11.2
+ _ZN9GSeqAlign12evalClippingEP5GASeqiifR10AlnClipOps at Base 0.11.2
+ _ZN9GSeqAlign12removeColumnEi at Base 0.11.2
+ _ZN9GSeqAlign13applyClippingER10AlnClipOps at Base 0.11.2
+ _ZN9GSeqAlign13revComplementEv at Base 0.11.2
+ _ZN9GSeqAlign15extendConsensusEcs at Base 0.11.2
+ _ZN9GSeqAlign5printEP8_IO_FILEc at Base 0.11.2
+ _ZN9GSeqAlign6addSeqEP5GASeqii at Base 0.11.2
+ _ZN9GSeqAlign7freeMSAEv at Base 0.11.2
+ _ZN9GSeqAlign8addAlignEP5GASeqPS_S1_ at Base 0.11.2
+ _ZN9GSeqAlign8buildMSAEb at Base 0.11.2
+ _ZN9GSeqAlign8finalizeEv at Base 0.11.2
+ _ZN9GSeqAlign8writeACEEP8_IO_FILEPKcb at Base 0.11.2
+ _ZN9GSeqAlign8writeMSAEP8_IO_FILEi at Base 0.11.2
+ _ZN9GSeqAlign9injectGapEP5GASeqii at Base 0.11.2
+ _ZN9GSeqAlign9refineMSAEbb at Base 0.11.2
+ _ZN9GSeqAlign9writeInfoEP8_IO_FILEPKcb at Base 0.11.2
+ _ZN9GSeqAlignC1EP5GASeqS1_ at Base 0.11.2
+ _ZN9GSeqAlignC2EP5GASeqS1_ at Base 0.11.2
+ _ZN9GXMemPool9kMinSpaceE at Base 0.11.2
+ _ZN9GffReader10gfoBuildIdEPKcS1_ at Base 0.11.2
+ _ZN9GffReader10gfoReplaceER5GPVecI6GffObjEPS1_S4_ at Base 0.11.2
+ _ZN9GffReader11nextBEDLineEv at Base 0.11.2
+ _ZN9GffReader11nextGffLineEv at Base 0.11.2
+ _ZN9GffReader11subfPoolAddER5GHashI8CNonExonEP6GffObj at Base 0.11.2
+ _ZN9GffReader12updateGffRecEP6GffObjP7GffLine at Base 0.11.2
+ _ZN9GffReader12updateParentEP6GffObjS1_ at Base 0.11.2
+ _ZN9GffReader13subfPoolCheckEP7GffLineR5GHashI8CNonExonERPc at Base 0.11.2
+ _ZN9GffReader14promoteFeatureEP8CNonExonRPcR5GHashIS0_E at Base 0.11.2
+ _ZN9GffReader15readExonFeatureEP6GffObjP7GffLineP5GHashI8CNonExonE at Base 0.11.2
+ _ZN9GffReader5pFindEPKcRP5GPVecI6GffObjE at Base 0.11.2
+ _ZN9GffReader6gfoAddEP6GffObj at Base 0.11.2
+ _ZN9GffReader6gfoAddER5GPVecI6GffObjEPS1_ at Base 0.11.2
+ _ZN9GffReader7gfoFindEPKcRP5GPVecI6GffObjES1_cjj at Base 0.11.2
+ _ZN9GffReader7readAllEv at Base 0.11.2
+ _ZN9GffReader8readNextEv at Base 0.11.2
+ _ZN9GffReader9newGffRecEP7BEDLineP5GPVecI6GffObjE at Base 0.11.2
+ _ZN9GffReader9newGffRecEP7GffLineP6GffObjP7GffExonP5GPVecIS2_Eb at Base 0.11.2
+ _ZNK4GStr10startsWithEPKc at Base 0.11.2
+ _ZNK4GStr10startsWithERKS_ at Base 0.11.2
+ _ZNK4GStr4copyEv at Base 0.11.2
+ _ZNK4GStr5indexEPKci at Base 0.11.2
+ _ZNK4GStr5indexERKS_i at Base 0.11.2
+ _ZNK4GStr5indexEci at Base 0.11.2
+ _ZNK4GStr6rindexEPKci at Base 0.11.2
+ _ZNK4GStr6rindexEci at Base 0.11.2
+ _ZNK4GStr6substrEii at Base 0.11.2
+ _ZNK4GStr7peelIntEv at Base 0.11.2
+ _ZNK4GStr8containsEPKc at Base 0.11.2
+ _ZNK4GStr8containsERKS_ at Base 0.11.2
+ _ZNK4GStr8containsEc at Base 0.11.2
+ _ZNK4GStr8endsWithEPKc at Base 0.11.2
+ _ZNK4GStr8endsWithERKS_ at Base 0.11.2
+ _ZNK4GStr8is_emptyEv at Base 0.11.2
+ _ZNK4GStr8is_spaceEv at Base 0.11.2
+ _ZNK4GStr8peelIntREv at Base 0.11.2
+ _ZNK4GStreqEPKc at Base 0.11.2
+ _ZNK4GStreqERKS_ at Base 0.11.2
+ _ZNK4GStrgeEPKc at Base 0.11.2
+ _ZNK4GStrgeERKS_ at Base 0.11.2
+ _ZNK4GStrgtEPKc at Base 0.11.2
+ _ZNK4GStrgtERKS_ at Base 0.11.2
+ _ZNK4GStrixEi at Base 0.11.2
+ _ZNK4GStrleEPKc at Base 0.11.2
+ _ZNK4GStrleERKS_ at Base 0.11.2
+ _ZNK4GStrltEPKc at Base 0.11.2
+ _ZNK4GStrltERKS_ at Base 0.11.2
+ _ZNK4GStrneEPKc at Base 0.11.2
+ _ZNK4GStrneERKS_ at Base 0.11.2
+ _ZNK4GStrplEPKc at Base 0.11.2
+ _ZNK4GStrplERKS_ at Base 0.11.2
+ _ZNK4GStrplEc at Base 0.11.2
+ _ZNK4GStrplEd at Base 0.11.2
+ _ZNK4GStrplEi at Base 0.11.2
+ _ZNK7GThread6get_idEv at Base 0.11.2
+ _ZNK7GThread8joinableEv at Base 0.11.2
+ _ZTI5GListI5GASeqE at Base 0.11.2
+ _ZTI5GListI6GXBandE at Base 0.11.2
+ _ZTI5GListI7GffAttrE at Base 0.11.2
+ _ZTI5GPVecI11GffNameInfoE at Base 0.11.2
+ _ZTI5GPVecI5GASeqE at Base 0.11.2
+ _ZTI5GPVecI6GXBandE at Base 0.11.2
+ _ZTI5GPVecI6GXSeedE at Base 0.11.2
+ _ZTI5GPVecI6GffObjE at Base 0.11.2
+ _ZTI5GPVecI6NucOriE at Base 0.11.2
+ _ZTI5GPVecI7GffAttrE at Base 0.11.2
+ _ZTI5GPVecI7GffExonE at Base 0.11.2
+ _ZTI5GPVecI8SeqDelOpE at Base 0.11.2
+ _ZTI5GPVecI9GFastaRecE at Base 0.11.2
+ _ZTI5GPVecI9GXAlnInfoE at Base 0.11.2
+ _ZTS11GffNameList at Base 0.11.2
+ _ZTS4GVecI4GSegE at Base 0.11.2
+ _ZTS4GVecI7CSeqGapE at Base 0.11.2
+ _ZTS4GVecI7GffExonE at Base 0.11.2
+ _ZTS4GVecIP5GPVecI6GffObjEE at Base 0.11.2
+ _ZTS4GVecIiE at Base 0.11.2
+ _ZTS4GVecItE at Base 0.11.2
+ _ZTS5GHashI11GffNameInfoE at Base 0.11.2
+ _ZTS5GHashI8CNonExonE at Base 0.11.2
+ _ZTS5GListI5GASeqE at Base 0.11.2
+ _ZTS5GListI6GXBandE at Base 0.11.2
+ _ZTS5GListI6GXSeedE at Base 0.11.2
+ _ZTS5GListI6GffObjE at Base 0.11.2
+ _ZTS5GListI6NucOriE at Base 0.11.2
+ _ZTS5GListI7GffAttrE at Base 0.11.2
+ _ZTS5GListI7GffExonE at Base 0.11.2
+ _ZTS5GListI8SeqDelOpE at Base 0.11.2
+ _ZTS5GListI9GFastaRecE at Base 0.11.2
+ _ZTS5GListI9GXAlnInfoE at Base 0.11.2
+ _ZTS5GPVecI11GffNameInfoE at Base 0.11.2
+ _ZTS5GPVecI5GASeqE at Base 0.11.2
+ _ZTS5GPVecI6GXBandE at Base 0.11.2
+ _ZTS5GPVecI6GXSeedE at Base 0.11.2
+ _ZTS5GPVecI6GffObjE at Base 0.11.2
+ _ZTS5GPVecI6NucOriE at Base 0.11.2
+ _ZTS5GPVecI7GffAttrE at Base 0.11.2
+ _ZTS5GPVecI7GffExonE at Base 0.11.2
+ _ZTS5GPVecI8SeqDelOpE at Base 0.11.2
+ _ZTS5GPVecI9GFastaRecE at Base 0.11.2
+ _ZTS5GPVecI9GXAlnInfoE at Base 0.11.2
+ _ZTS8GffAttrs at Base 0.11.2
+ _ZTS9GDynArrayIPcE at Base 0.11.2
+ _ZTS9GDynArrayIcE at Base 0.11.2
+ _ZTS9GDynArrayIsE at Base 0.11.2
+ _ZTS9GSeqAlign at Base 0.11.2
+ _ZTS9GXBandSet at Base 0.11.2
+ _ZZN7GThread11num_runningEvE5vLock at Base 0.11.2
+ _ZeqPKcRK4GStr at Base 0.11.2
+ _ZgtPKcRK4GStr at Base 0.11.2
+ _ZlePKcRK4GStr at Base 0.11.2
+ _ZltPKcRK4GStr at Base 0.11.2
+ _ZplPKcRK4GStr at Base 0.11.2
+ cdbInfoSIZE at Base 0.11.2
+ endianSetup at Base 0.11.2
+ error_intr at Base 0.11.2
+ error_nomem at Base 0.11.2
+ error_proto at Base 0.11.2
+ exonTypes at Base 0.11.2
+ gcvt_int16 at Base 0.11.2
+ gcvt_offt at Base 0.11.2
+ gcvt_uint at Base 0.11.2
+ gff_fid_CDS at Base 0.11.2
+ gff_fid_exon at Base 0.11.2
+ gff_fid_mRNA at Base 0.11.2
+ gff_fid_transcript at Base 0.11.2
+ irec_size32 at Base 0.11.2
+ xgapcodes at Base 0.11.2


=====================================
debian/patches/autoconf.patch
=====================================
@@ -4,7 +4,7 @@ Descriptions: Build proper libraries via automake
 
 --- /dev/null
 +++ b/Makefile.am
-@@ -0,0 +1,32 @@
+@@ -0,0 +1,38 @@
 +lib_LTLIBRARIES  = libgclib.la
 +
 +libgclibdir=$(includedir)
@@ -16,7 +16,6 @@ Descriptions: Build proper libraries via automake
 +                       GBase.cpp \
 +                       gcdb.cpp \
 +                       GCdbYank.cpp \
-+                       gdimg.cpp \
 +                       gdna.cpp \
 +                       GFaSeqGet.cpp \
 +                       GFastaIndex.cpp \
@@ -24,11 +23,14 @@ Descriptions: Build proper libraries via automake
 +                       gsocket.cpp \
 +                       gstopwatch.cpp \
 +                       GStr.cpp \
-+                       gtest.cpp \
 +                       GThreads.cpp
 +
-+#                       GBam.cpp # Exists but is not build by upstream Makefile
++#                       gdimg.cpp # Not build by upstream Makefile
++#				 # Would introduce unneeded dependency from libgd-dev
++#                       GBam.cpp # is not build by upstream Makefile
 +#				 # Would need bam.h / sam.h
++#                       gtest.cpp # Seems to be just a test (FIXME: create autopkgtest from it)
++
 +
 +libgclib_la_LDFLAGS = -version-info @LIB_VERSION@
 +
@@ -37,6 +39,10 @@ Descriptions: Build proper libraries via automake
 +pkgconfigdir=$(libdir)/pkgconfig
 +pkgconfig_DATA = libgclib.pc
 +
++# FIXME: Build mdtest to properly test the lib.  The code below does not work
++# mdtest_SOURCES = mdtest.cpp libgclib.a
++# mdtest_LDADD = -L. -lgclib
++# bin_PROGRAMS = mdtest
 --- /dev/null
 +++ b/libgclib.pc.in
 @@ -0,0 +1,11 @@


=====================================
debian/rules
=====================================
@@ -23,3 +23,6 @@ override_dh_install:
 		    debian/tmp/usr/lib/*/*.so
 	mkdir debian/$(DEB_SOURCE)-dev/usr/include/gclib
 	mv debian/$(DEB_SOURCE)-dev/usr/include/*.h* debian/$(DEB_SOURCE)-dev/usr/include/gclib
+	# delete header files of not compiled C++ source files
+	find debian/$(DEB_SOURCE)-dev -name gdimg.h -delete
+	find debian/$(DEB_SOURCE)-dev -name GBam.h -delete


=====================================
debian/tests/control deleted
=====================================
@@ -1,3 +0,0 @@
-Tests: run-unit-test
-Depends: @
-Restrictions: allow-stderr


=====================================
debian/tests/run-unit-test deleted
=====================================
@@ -1,18 +0,0 @@
-#!/bin/bash
-set -e
-
-pkg=#PACKAGENAME#
-
-if [ "${AUTOPKGTEST_TMP}" = "" ] ; then
-  AUTOPKGTEST_TMP=$(mktemp -d /tmp/${pkg}-test.XXXXXX)
-  # Double quote below to expand the temporary directory variable now versus
-  # later is on purpose.
-  # shellcheck disable=SC2064
-  trap "rm -rf ${AUTOPKGTEST_TMP}" 0 INT QUIT ABRT PIPE TERM
-fi
-
-cp -a /usr/share/doc/${pkg}/examples/* "${AUTOPKGTEST_TMP}"
-
-cd "${AUTOPKGTEST_TMP}"
-
-#do_stuff_to_test_package#



View it on GitLab: https://salsa.debian.org/med-team/libgclib/compare/3a229756b66e6d04b118ec30da4a29bf304eabec...6572cc68344d2464b1e58d4128e3a56c2c7d65b1

-- 
View it on GitLab: https://salsa.debian.org/med-team/libgclib/compare/3a229756b66e6d04b118ec30da4a29bf304eabec...6572cc68344d2464b1e58d4128e3a56c2c7d65b1
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