Re: C++ help needed for pbdagcon

2020-01-23 Thread Matthew Fernandez
> On Jan 22, 2020, at 11:56, Andreas Tille wrote: > > Control: tags -1 help > > I have fixed Python2->Python3 migration as well as the FTBFS with > pbseqlib 5.3.3+dfsg-1 issue in Git[1]. Unfortunately there is another > build issue in the C++ code which I have no idea how to fix: > > > ... >

C++ help needed for pbdagcon

2020-01-22 Thread Andreas Tille
Control: tags -1 help I have fixed Python2->Python3 migration as well as the FTBFS with pbseqlib 5.3.3+dfsg-1 issue in Git[1]. Unfortunately there is another build issue in the C++ code which I have no idea how to fix: ... g++ -g -O2 -fdebug-prefix-map=/build/pbdagcon-0.3+git20180411.c14c422+ds

Re: [Debian-med-packaging] C++ help needed for yellyfish: "error: catching polymorphic type"

2018-09-03 Thread Gert Wollny
Am Montag, den 03.09.2018, 09:18 +0200 schrieb Andreas Tille: > Hi, > > I'm trying to build the latest version of jellyfish which I pushed to > Salsa[1]. Unfortunately I'm running into You can just catch by reference catch(MergeError& e) This is the better approach anyway: https://blog.kna

C++ help needed for yellyfish: "error: catching polymorphic type"

2018-09-03 Thread Andreas Tille
Hi, I'm trying to build the latest version of jellyfish which I pushed to Salsa[1]. Unfortunately I'm running into g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/build/jellyfish-2.2.10=. -fstac

Re: C++ help needed for new version of pbdagcon

2018-08-18 Thread Andreas Tille
On Sat, Aug 18, 2018 at 09:18:58AM +0800, Paul Wise wrote: > On Fri, Aug 17, 2018 at 10:44 PM, Andrey Rahmatullin wrote: > > > Looks like the project code was updated for s/HITS_DB/DAZZ_DB/ but the > > DAZZ_DB submodule snapshot was not updated. Ask the upstream. > > This sounds like an embedded

Re: C++ help needed for new version of pbdagcon

2018-08-17 Thread Paul Wise
On Fri, Aug 17, 2018 at 10:44 PM, Andrey Rahmatullin wrote: > Looks like the project code was updated for s/HITS_DB/DAZZ_DB/ but the > DAZZ_DB submodule snapshot was not updated. Ask the upstream. This sounds like an embedded code copy, you might want to talk to upstream to find out and get it re

Re: C++ help needed for new version of pbdagcon

2018-08-17 Thread Andrey Rahmatullin
On Fri, Aug 17, 2018 at 01:16:25PM +0200, Andreas Tille wrote: > DazAlnProvider.hpp:122:5: error: 'DAZZ_DB' does not name a type > DAZZ_DB db_; > ^~~ Looks like the project code was updated for s/HITS_DB/DAZZ_DB/ but the DAZZ_DB submodule snapshot was not updated. Ask the upstream. -

C++ help needed for new version of pbdagcon

2018-08-17 Thread Andreas Tille
Hi, I've updated pbdagcon[1] to latest upstream commit. Unfortunately the build fails with: ... g++ -g -O2 -fdebug-prefix-map=/build/pbdagcon-0.3+git20180411.c14c422+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++11 -Wall -Wuninitialized -pedantic -Wdate-time -D_FO

Re: C++ help needed for spaced: call of overloaded 'abs(uint32_t&)' is ambiguous

2018-07-09 Thread Fabian Klötzl
Hi, An unsigned integer cannot be negative. Try deleting the violating line patternset.cpp:188 or even the whole surrounding if statement. Best, Fabian On 09.07.2018 13:11, Andreas Tille wrote: > patternset.cpp:188:23: error: call of overloaded 'abs(uint32_t&)' is ambiguous >size = std::abs(

Re: C++ help needed for spaced: call of overloaded 'abs(uint32_t&)' is ambiguous

2018-07-09 Thread Andreas Tscharner
On 09.07.2018 13:11, Andreas Tille wrote: Hi, Hello, [snip] patternset.cpp:188:23: error: call of overloaded 'abs(uint32_t&)' is ambiguous size = std::abs(size); ^ There is no abs function which takes uint32_t as parameter, so it does not know which one it shou

Re: C++ help needed for spaced: call of overloaded 'abs(uint32_t&)' is ambiguous

2018-07-09 Thread Andrey Rahmatullin
On Mon, Jul 09, 2018 at 01:11:34PM +0200, Andreas Tille wrote: > patternset.cpp: In member function 'void patternset::CheckParams()': > patternset.cpp:187:10: warning: comparison of unsigned expression < 0 is > always false [-Wtype-limits] > if(size < 0){ > ~^~~ > patternset.cpp:188:23:

C++ help needed for spaced: call of overloaded 'abs(uint32_t&)' is ambiguous

2018-07-09 Thread Andreas Tille
Hi, I take the freedom to ask for some C++ help for the new version of spaced[1]: ... g++ -DHAVE_CONFIG_H -I. -I.. -Wall -Wextra -std=c++11 -Wno-char-subscripts -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O2 -fdebug-prefix-map=/build/spaced-1.2.0-201605+dfsg=. -fstack-protector-strong

How to sensibly announce a finalised packaging if I do not intend to upload myself (Was: packjpg packaging: C++ help needed)

2018-01-31 Thread Andreas Tille
Hi Juhani, On Wed, Jan 31, 2018 at 07:35:47PM +0200, Juhani Numminen wrote: > > The compilation succeeds if I modify the patch not to define DEV_INFOS: > > $ git diff -U0 > diff --git a/debian/patches/dev.patch b/debian/patches/dev.patch > index 02869a1..415ebda 100644 > --- a/debian/patches/dev

Re: packjpg packaging: C++ help needed

2018-01-31 Thread Juhani Numminen
Andreas Tille kirjoitti 31.01.2018 klo 14:49: > Hi, > > I stumbled upon unfinished packaging for packjpg in collab-maint SVN[1]. > I intended to save the current packaging state to Git before SVN will be > closed down and consiered pkg-phototools a better place than > collab-maint. So I updated t

packjpg packaging: C++ help needed

2018-01-31 Thread Andreas Tille
Hi, I stumbled upon unfinished packaging for packjpg in collab-maint SVN[1]. I intended to save the current packaging state to Git before SVN will be closed down and consiered pkg-phototools a better place than collab-maint. So I updated the packaging to latest upstream and pushed the packaging t

Re: [Debian-med-packaging] C++ help needed for lamarc

2017-12-05 Thread Gert Wollny
Am Montag, den 04.12.2017, 21:53 +0100 schrieb Andreas Tille: > Hi Gert, > > thanks for your hint. > > On Mon, Dec 04, 2017 at 07:32:42PM +0100, Gert Wollny wrote: > > > > make_pair doesn't require the explicite type specification, i.e. > > the > > following should work:  > > > > - return make_

Re: [Debian-med-packaging] C++ help needed for lamarc

2017-12-04 Thread Andreas Tille
Hi Gert, thanks for your hint. On Mon, Dec 04, 2017 at 07:32:42PM +0100, Gert Wollny wrote: > > make_pair doesn't require the explicite type specification, i.e. the > following should work: > > - return make_pair(eigvals, eigvecs); > + return make_pair(eigvals, eigvecs); This worked at that v

Re: [Debian-med-packaging] C++ help needed for lamarc

2017-12-04 Thread Gert Wollny
Am Montag, den 04.12.2017, 17:52 +0100 schrieb Andreas Tille: > Hi, > > I intend to package lamarc[1] and hit the following C++ issue: > > ... > g++ -DHAVE_CONFIG_H -I. -I./config   -Wdate-time -D_FORTIFY_SOURCE=2 > -DLAMARC_COMPILE_LINUX -DNDEBUG  -Wall -Wextra -Wno- > unused -I ./co

C++ help needed for lamarc

2017-12-04 Thread Andreas Tille
Hi, I intend to package lamarc[1] and hit the following C++ issue: ... g++ -DHAVE_CONFIG_H -I. -I./config -Wdate-time -D_FORTIFY_SOURCE=2 -DLAMARC_COMPILE_LINUX -DNDEBUG -Wall -Wextra -Wno-unused -I ./config -I ./config -I ./src/bayeslike -I ./ src/control -I ./src/conversion

Re: [Debian-med-packaging] C++ help needed for centrifuge

2017-11-26 Thread Alexis Murzeau
Le 27/11/2017 à 00:39, Alexis Murzeau a écrit : > Hi, > > Le 26/11/2017 à 22:01, Fabian Klötzl a écrit : >> Ho, >> >> On 26.11.2017 19:32, Walter Landry wrote: >>> Andreas Tille wrote: Unfortunately I've hit another issue: ... classifier.h:428:54: error: the value of 'rank' is

Re: [Debian-med-packaging] C++ help needed for centrifuge

2017-11-26 Thread Alexis Murzeau
Hi, Le 26/11/2017 à 22:01, Fabian Klötzl a écrit : > Ho, > > On 26.11.2017 19:32, Walter Landry wrote: >> Andreas Tille wrote: >>> Unfortunately I've hit another issue: >>> >>> ... >>> classifier.h:428:54: error: the value of 'rank' is not usable in a constant >>> expression >>>

Re: [Debian-med-packaging] C++ help needed for centrifuge

2017-11-26 Thread Fabian Klötzl
Ho, On 26.11.2017 19:32, Walter Landry wrote: > Andreas Tille wrote: >> Unfortunately I've hit another issue: >> >> ... >> classifier.h:428:54: error: the value of 'rank' is not usable in a constant >> expression >> while((uint8_t)_hitMap[i].rank < rank) { >>

Re: C++ help needed for centrifuge

2017-11-26 Thread Walter Landry
Andreas Tille wrote: > Hi, > > On Sat, Nov 25, 2017 at 01:39:03PM -0800, Walter Landry wrote: >> > In file included from centrifuge_build.cpp:27:0: >> > bt2_idx.h: In static member function 'static std::pair*, >> > Ebwt*> Ebwt::fromStrings(const >> > EList >&, bool, int, int, bool, >> > in

Re: C++ help needed for centrifuge

2017-11-26 Thread Andreas Tille
Hi, On Sat, Nov 25, 2017 at 01:39:03PM -0800, Walter Landry wrote: > > In file included from centrifuge_build.cpp:27:0: > > bt2_idx.h: In static member function 'static std::pair*, > > Ebwt*> Ebwt::fromStrings(const > > EList >&, bool, int, int, bool, > > int32_t, int32_t, int32_t, const st

Re: C++ help needed for centrifuge

2017-11-25 Thread Walter Landry
Andreas Tille wrote: > Hi, > > I started packaging centrifuge[1] and hit a build error which > is most probably caused by gcc-7 incompatibility: > > ... > In file included from centrifuge_build.cpp:27:0: > bt2_idx.h: In static member function 'static std::pair*, > Ebwt*> Ebwt::fromStrings(const

Re: C++ help needed for centrifuge

2017-11-25 Thread Alexis Murzeau
Le 25/11/2017 à 21:56, Andreas Tille a écrit : > Hi, > > I started packaging centrifuge[1] and hit a build error which > is most probably caused by gcc-7 incompatibility: > > ... > In file included from centrifuge_build.cpp:27:0: > bt2_idx.h: In static member function 'static std::pair*, > Ebwt*

C++ help needed for centrifuge

2017-11-25 Thread Andreas Tille
Hi, I started packaging centrifuge[1] and hit a build error which is most probably caused by gcc-7 incompatibility: ... In file included from centrifuge_build.cpp:27:0: bt2_idx.h: In static member function 'static std::pair*, Ebwt*> Ebwt::fromStrings(const EList >&, bool, int, int, bool, in

Re: C++ help needed (Was: Help with cmake / Qt5 migration needed)

2017-10-21 Thread Juhani Numminen
Hi Andreas, Andreas Tille kirjoitti 21.10.2017 klo 09:22: Hi Juhani, thanks a lot for your help. I'm happy to help you. On Fri, Oct 20, 2017 at 08:41:35PM +0300, Juhani Numminen wrote: I think that's the build system sorted, even though the compilation still fails. Now you probably need t

Re: C++ help needed (Was: Help with cmake / Qt5 migration needed)

2017-10-20 Thread Andreas Tille
Hi Juhani, thanks a lot for your help. On Fri, Oct 20, 2017 at 08:41:35PM +0300, Juhani Numminen wrote: > > I think that's the build system sorted, even though the compilation still > fails. Now you probably need to add some includes. I was able to add the said includes but somehow this project

Re: C++ help needed (Was: Help with cmake / Qt5 migration needed)

2017-10-20 Thread Juhani Numminen
Hi Andreas, Andreas Tille kirjoitti 20.10.2017 klo 18:41: Hi Juhani, On Fri, Oct 20, 2017 at 06:14:02PM +0300, Juhani Numminen wrote: -TARGET_LINK_LIBRARIES( qtbeads ${QT_LIBRARIES} ... +TARGET_LINK_LIBRARIES( qtbeads Qt::Widgets ...>> I can't see that line in the patch at [1] https://anon

Re: C++ help needed (Was: Help with cmake / Qt5 migration needed)

2017-10-20 Thread Andreas Tille
Hi Juhani, On Fri, Oct 20, 2017 at 06:14:02PM +0300, Juhani Numminen wrote: > > I think I fixed this by removing the code copy of CImg.h and using the > > Debian packaged version instead. But the QDebug issue came back and > > may be I need another trick to tweak src/qtbeads/CMakeLists.txt that >

Re: C++ help needed (Was: Help with cmake / Qt5 migration needed)

2017-10-20 Thread Juhani Numminen
Andreas Tille kirjoitti 20.10.2017 klo 15:29: > Hi again, > > On Fri, Oct 20, 2017 at 11:55:22AM +0200, Wout B wrote: >> It looks like the initial #include was actually correct and that >> it indeed doesn't find it somehow. Manually adding Qt5::Core and >> Qt5::Widgets to target_link_libraries

C++ help needed (Was: Help with cmake / Qt5 migration needed)

2017-10-20 Thread Andreas Tille
Hi again, On Fri, Oct 20, 2017 at 11:55:22AM +0200, Wout B wrote: > It looks like the initial #include was actually correct and that > it indeed doesn't find it somehow. Manually adding Qt5::Core and > Qt5::Widgets to target_link_libraries seems to work though. I can confirm that this helps - th

Re: C++ help needed for new version of tifffile

2017-10-05 Thread Mathieu Malaterre
On Thu, Oct 5, 2017 at 9:56 PM, Sven Joachim wrote: > On 2017-10-05 21:00 +0200, Andreas Tille wrote: > >> I migrated the Debian packaging of tifffile from SVN to Git[1]. After >> upgrading to the latest upstream version (dated 2017-09-14) I get: >> >> ... >> x86_64-linux-gnu-gcc -pthread -DNDEBU

Re: C++ help needed for new version of tifffile

2017-10-05 Thread Andreas Tille
On Thu, Oct 05, 2017 at 09:56:39PM +0200, Sven Joachim wrote: > On 2017-10-05 21:00 +0200, Andreas Tille wrote: > > It seems that the definition of GET_NEXT_CODE is just wrong - but > > what would be correct? > > Remove the last backslash, or include a blank line after it. This > prevents the "st

Re: C++ help needed for new version of tifffile

2017-10-05 Thread Sven Joachim
On 2017-10-05 21:00 +0200, Andreas Tille wrote: > I migrated the Debian packaging of tifffile from SVN to Git[1]. After > upgrading to the latest upstream version (dated 2017-09-14) I get: > > ... > x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall > -Wstrict-prototypes -fno-strict-ali

Re: C help needed for new version of tifffile

2017-10-05 Thread Christian Seiler
Hi Andreas, On 10/05/2017 09:00 PM, Andreas Tille wrote: > It seems that the definition of GET_NEXT_CODE is just wrong - but > what would be correct? So the code contains the following: #define GET_NEXT_CODE \ code = *((uint32_t*)((void*)(encoded + (bitcount >> 3; \ if (little_endian

C++ help needed for new version of tifffile

2017-10-05 Thread Andreas Tille
Hi, I migrated the Debian packaging of tifffile from SVN to Git[1]. After upgrading to the latest upstream version (dated 2017-09-14) I get: ... x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -fdebug-prefix-map=/build/tifffile-2017091

Re: C++ help needed (Was: Bug#853375: disulfinder: ftbfs with GCC-7)

2017-08-26 Thread Christian Seiler
Hi Andreas, On 08/26/2017 10:08 PM, Andreas Tille wrote: > I moved disulfinder to Git[1] and tried to track down this issue with my > limited C++ knowledge but failed. The issue is > > ... > make[3]: Entering directory '/build/disulfinder-1.2.11/disulfind/src' > g++ -Wdate-time -D_FORTIFY_SOURCE

Re: C++ help needed (Was: Bug#853375: disulfinder: ftbfs with GCC-7)

2017-08-26 Thread James Cowgill
Hi, On 26/08/17 21:08, Andreas Tille wrote: > Hi, > > I moved disulfinder to Git[1] and tried to track down this issue with my > limited C++ knowledge but failed. The issue is > > ... > make[3]: Entering directory '/build/disulfinder-1.2.11/disulfind/src' > g++ -Wdate-time -D_FORTIFY_SOURCE=2 -

C++ help needed (Was: Bug#853375: disulfinder: ftbfs with GCC-7)

2017-08-26 Thread Andreas Tille
Hi, I moved disulfinder to Git[1] and tried to track down this issue with my limited C++ knowledge but failed. The issue is ... make[3]: Entering directory '/build/disulfinder-1.2.11/disulfind/src' g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/disulfinder-1.2.11=. -fstack

Re: C++ help needed with new version of phyml

2017-06-24 Thread Thomas Schmitt
Hi, Andreas Tille wrote: > there is a remaining issue: > lk.c: In function 'Update_PMat_At_Given_Edge': > lk.c:2263:31: error: invalid initializer >int p_matrices[1] = b_fcus->Pij_rr_idx; Try int p_matrices[1] = { b_fcus->Pij_rr_idx }; In lk.c there is void Update_P

Re: C++ help needed with new version of phyml

2017-06-24 Thread Andrey Rahmatullin
On Sat, Jun 24, 2017 at 04:40:06PM +0200, Andreas Tille wrote: > However, there is a remaining issue: You've missed the suggestion for that one. It basically says "do the same change". -- WBR, wRAR signature.asc Description: PGP signature

Re: C++ help needed with new version of phyml

2017-06-24 Thread Andreas Tille
Hi Thomas, On Sat, Jun 24, 2017 at 03:29:56PM +0200, Thomas Schmitt wrote: > i wrote: > > https://anonscm.debian.org/cgit/debian-med/phyml.git/tree/src/lk.c > > has > > ... > > double branch_lens[1] = { len }; > > Duh. That's already how i think it should be. > > The git code has in lin

Re: C++ help needed with new version of phyml

2017-06-24 Thread Thomas Schmitt
Hi, i wrote: > https://anonscm.debian.org/cgit/debian-med/phyml.git/tree/src/lk.c > has > ... > double branch_lens[1] = { len }; Duh. That's already how i think it should be. The git code has in line 2264 double branch_lens[1] = len; Have a nice day :) Thomas

Re: C++ help needed with new version of phyml

2017-06-24 Thread Thomas Schmitt
Hi. Andreas Tille wrote: > lk.c:2264:31: error: invalid initializer > double branch_lens[1] = len; I guess the compiler wants {}-brackets around the scalar value when it shall initialize a vector. https://anonscm.debian.org/cgit/debian-med/phyml.git/tree/src/lk.c has phydbl len;

C++ help needed with new version of phyml

2017-06-24 Thread Andreas Tille
Hi, I'd like to package the latest version of phyml[1]. Unfortunately I get ... gcc -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -O2 -fomit-frame-pointer -funroll-loops -Wall -Winline -march=native -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o lk.o lk.c utilities.c: In function

Re: C++ help needed for psortb

2017-04-20 Thread Bastien ROUCARIES
On Wed, Apr 19, 2017 at 4:20 PM, Andreas Tille wrote: > Hi Bastien, > > On Wed, Apr 19, 2017 at 01:32:43PM +, Bastien Roucaries wrote: >> >> Le 19 avril 2017 08:09:11 GMT+02:00, Andreas Tille a >> écrit : >> > >> >Psortb[1] was using header files from biosquid[2] and hmmer2[3] but did >> >no

Re: C++ help needed for psortb

2017-04-19 Thread Andreas Tille
Hi Bastien, On Wed, Apr 19, 2017 at 01:32:43PM +, Bastien Roucaries wrote: > > Le 19 avril 2017 08:09:11 GMT+02:00, Andreas Tille a écrit > : > > > >Psortb[1] was using header files from biosquid[2] and hmmer2[3] but did > >not shipped the according library code. No idea how this might hav

Re: C++ help needed for psortb

2017-04-19 Thread Bastien Roucaries
Le 19 avril 2017 08:09:11 GMT+02:00, Andreas Tille a écrit : >Hi Christian, > >On Tue, Apr 18, 2017 at 11:07:03PM +0200, Christian Seiler wrote: >> > >> > which is probably due to the fact that I did not changed hmmer2 to >> > create a shared rather than a static library and lhmmer is not >comp

Re: C++ help needed for psortb

2017-04-18 Thread Andreas Tille
Hi Christian, On Tue, Apr 18, 2017 at 11:07:03PM +0200, Christian Seiler wrote: > > > > which is probably due to the fact that I did not changed hmmer2 to > > create a shared rather than a static library and lhmmer is not compiled > > with -fPIC. What might be the less stressful way to solve thi

Re: C++ help needed for psortb

2017-04-18 Thread Christian Seiler
On 04/18/2017 11:01 PM, Andreas Tille wrote: > x86_64-linux-gnu-gcc -g -O2 -fdebug-prefix-map=/build/psortb-3.0.4+dfsg=. > -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro > -shared -L/usr/local/lib -fstack-protector-strong HMM.o hmm-binding.o -o > ../blib/arch/auto/Algor

Re: C++ help needed for psortb

2017-04-18 Thread Andreas Tille
Hi Walter, On Tue, Apr 18, 2017 at 01:26:58PM -0700, Walter Landry wrote: > > hmm-binding.cpp: In member function ‘void HMM::init(char*, int, int)’: > > hmm-binding.cpp:245:20: error: ‘CUT_NONE’ was not declared in this scope > >thresh.autocut = CUT_NONE; > > ^~~~ > > M

Re: C++ help needed for psortb

2017-04-18 Thread Christian Seiler
Hi Andreas, On 04/18/2017 10:15 PM, Andreas Tille wrote: > The definition of the structure threshold_s can be found in > /usr/include/hmmer2/structs.h (of package libhmmer2-dev) and > looks like > > struct threshold_s { > float globT; /* T parameter: keep only hits > globT bits

Re: C++ help needed for psortb

2017-04-18 Thread Walter Landry
Andreas Tille wrote: > hmm-binding.cpp: In member function ‘void HMM::init(char*, int, int)’: > hmm-binding.cpp:245:20: error: ‘CUT_NONE’ was not declared in this scope >thresh.autocut = CUT_NONE; > ^~~~ > Makefile:346: recipe for target 'hmm-binding.o' failed It is di

C++ help needed for psortb

2017-04-18 Thread Andreas Tille
Hi, I intend to package psortb in Debian Med team[1]. To successfully build this package I needed to re-arrange the package layout of biosquid and hmmer2 since psortb is using code from those project but only provides the according header files. This was solved by proper -dev packages - however,

Re: More C++ help needed (Was: Bug#811866: fixed in hyphy 2.2.6+dfsg-4)

2016-08-14 Thread Jason Crain
On 2016-08-14, Andreas Tille wrote: > Since there was no answer to this question I just did this since it > seems like a working solution. Unfortunately there are further build > issues I can't deal with: > ... > /build/hyphy-2.2.6+dfsg/src/gui/HYChartWindow.cpp:3010:54: error: no matching > fu

Re: More C++ help needed (Was: Bug#811866: fixed in hyphy 2.2.6+dfsg-4)

2016-08-14 Thread Jakub Wilk
* Manuel A. Fernandez Montecelo , 2016-08-14, 21:39: Also, if you substitute e.g. "255*.94" for "255*94/100", make sure that you use parentheses as in "(255*94)/100", otherwise you can end up with "255*(94/100) -> 255*0 -> 0" for all such values (I cannot recall the rules now, but I think that

Re: More C++ help needed (Was: Bug#811866: fixed in hyphy 2.2.6+dfsg-4)

2016-08-14 Thread Manuel A. Fernandez Montecelo
2016-08-14 20:53 Andreas Tille: Hi again, On Sat, Aug 13, 2016 at 09:11:52PM +0200, Andreas Tille wrote: _HYColorchartColors [HY_CHART_COLOR_COUNT] = { {255*.94, 255*.12, 255*.11 },//(Red) {255*.41, 255*.46, 255*.91 },//(Evening Blue) {255, 255*.91, 255*.34 },//(Bana

More C++ help needed (Was: Bug#811866: fixed in hyphy 2.2.6+dfsg-4)

2016-08-14 Thread Andreas Tille
Hi again, On Sat, Aug 13, 2016 at 09:11:52PM +0200, Andreas Tille wrote: > _HYColorchartColors [HY_CHART_COLOR_COUNT] = { > {255*.94, 255*.12, 255*.11 },//(Red) > {255*.41, 255*.46, 255*.91 },//(Evening Blue) > {255, 255*.91, 255*.34 },//(Banana) > {255*.18, 255*.55

Re: C++ help needed for libfastahack

2016-06-23 Thread Andreas Tille
Thanks for the always useful hints Andreas. On Thu, Jun 23, 2016 at 11:46:51AM +0200, Gert Wollny wrote: > Hello Andreas,  > > Am Donnerstag, den 23.06.2016, 11:24 +0200 schrieb Andreas Tille: > > Hi, > >  > > As I did yesterday successfully (thanks to the help of Gert) I again > > conside

Re: [Debian-med-packaging] C++ help needed for libfastahack

2016-06-23 Thread Gert Wollny
Hello Andreas,  Am Donnerstag, den 23.06.2016, 11:24 +0200 schrieb Andreas Tille: > Hi, >  > As I did yesterday successfully (thanks to the help of Gert) I again > considered it the easiest way to build the lib by adding configure.ac > and Makefile.am as quilt patch and use autoconf.  This went fi

C++ help needed for libfastahack

2016-06-23 Thread Andreas Tille
Hi, I need to package libfastahack[1] as a pre-pre-dependency for some Debian Med package. The code comes with a manually crafted Makefile that simply creates an executable while the pre-depencency of my package[2] needs a devel package. As I did yesterday successfully (thanks to the help of Ger

Re: [Debian-med-packaging] C++ help needed for libsmithwaterman

2016-06-22 Thread Andreas Tille
On Wed, Jun 22, 2016 at 03:04:06PM +0200, Gert Wollny wrote: > > I'll see what I can do to add these things, I expect to push this > > later today or tomorrow. > > Later as in: "I just did it" :)  Muchas gracias. Thanks for the very quick help Andreas. -- http://fam-tille.de

Re: [Debian-med-packaging] C++ help needed for libsmithwaterman

2016-06-22 Thread Gert Wollny
Am Mittwoch, den 22.06.2016, 14:54 +0200 schrieb Gert Wollny: > I'll see what I can do to add these things, I expect to push this > later today or tomorrow. Later as in: "I just did it" :) 

Re: [Debian-med-packaging] C++ help needed for libsmithwaterman

2016-06-22 Thread Gert Wollny
Hello Andreas,  Am Mittwoch, den 22.06.2016, 14:22 +0200 schrieb Andreas Tille: > Hi, > > I need to package libsmithwaterman[1] as a pre-pre-dependency for > some Debian Med package.  The code comes with a manually crafted > Makefile that simply creates an executable while the pre-depencency > of

Re: C++ help needed for libsmithwaterman

2016-06-22 Thread Neutron Soutmun
On Wed, Jun 22, 2016 at 7:37 PM, Neutron Soutmun wrote: > Hi, > > On Wed, Jun 22, 2016 at 7:22 PM, Andreas Tille wrote: > [snip] >> [1] https://anonscm.debian.org/git/debian-med/libsmithwaterman.git > > It's broken, did you forget to push this repository ? A few minutes later, it's valid. Sorry

Re: C++ help needed for libsmithwaterman

2016-06-22 Thread Neutron Soutmun
Hi, On Wed, Jun 22, 2016 at 7:22 PM, Andreas Tille wrote: [snip] > [1] https://anonscm.debian.org/git/debian-med/libsmithwaterman.git It's broken, did you forget to push this repository ? Best regards, Neutron Soutmun

C++ help needed for libsmithwaterman

2016-06-22 Thread Andreas Tille
Hi, I need to package libsmithwaterman[1] as a pre-pre-dependency for some Debian Med package. The code comes with a manually crafted Makefile that simply creates an executable while the pre-depencency of my package[2] needs a devel package (tries to include one of the contained headers SmithWate

Re: C++ help needed for Tide

2015-09-30 Thread Sébastien Jodogne
Hi, > g++ -ggdb -O6 -DNDEBUG -I./protoobj -g -O2 -fstack-protector-strong -Wformat > -Werror=format-security -o obj-opt-x86_64/test_spectrum_preprocess.o -c > src/test_spectrum_preprocess.cc > In file included from src/test_spectrum_preprocess.cc:8:0: > src/records.h: In destructor 'RecordWriter::

Re: C++ help needed for Tide

2015-09-30 Thread Andrey Rahmatullin
On Wed, Sep 30, 2015 at 08:28:17PM +0200, Andreas Tille wrote: > Hi, > > I have started packaging Tide (a tandard tool for ass-spectroscopy) at > >git://anonscm.debian.org/debian-med/tide.git > > Unfortunately these days gcc is more picky about C++ syntax and I was > running into > > g++ -g

C++ help needed for Tide

2015-09-30 Thread Andreas Tille
Hi, I have started packaging Tide (a tandard tool for ass-spectroscopy) at git://anonscm.debian.org/debian-med/tide.git Unfortunately these days gcc is more picky about C++ syntax and I was running into g++ -ggdb -O6 -DNDEBUG -I./protoobj -g -O2 -fstack-protector-strong -Wformat -Werror=for

Re: C++ help needed (Was: Bug#777922: jellyfish: ftbfs with GCC-5)

2015-07-03 Thread Jakub Wilk
* Andreas Tille , 2015-07-03, 06:10: CXX unit_tests/bin_test_all-test_main.o In file included from ./unit_tests/gtest/gtest.h:308:0, from unit_tests/test_main.cc:20: /usr/include/c++/5/sstream:335:7: error: 'struct std::basic_stringbuf<_CharT, _Traits, _Alloc>::__xfer_bufpt

C++ help needed (Was: Bug#777922: jellyfish: ftbfs with GCC-5)

2015-07-02 Thread Andreas Tille
Hi, again I have no idea how to fix this issue and need to ask some c++ experts. Thanks for any help Andreas. On Thu, Feb 12, 2015 at 10:32:46AM +, Matthias Klose wrote: > Package: src:jellyfish > Version: 2.1.4-1 > Severity: normal > Tags: sid stretch > User: debian-...@lists.debian.

Re: C++ help wanted: FTBFS mira

2011-12-08 Thread Andreas Tille
Hi, On Thu, Dec 08, 2011 at 09:53:03AM +0100, Mike Hommey wrote: > > 219:bposhashstat_t () { > > 220:} > > And line 163 is: > 163: bposhashstat_t() {}; > > In other words, you have two definitions of the same (empty) constructor > in the same class. Ahh, deleting the second one works

Re: C++ help wanted: FTBFS mira

2011-12-08 Thread Mike Hommey
On Thu, Dec 08, 2011 at 09:39:05AM +0100, Andreas Tille wrote: > Hi, > > I try to build a new upstream version of mira but failed and without > having realy checked it also the current version will fail with latest > gcc. > > The build log says: > > g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=

C++ help wanted: FTBFS mira

2011-12-08 Thread Andreas Tille
Hi, I try to build a new upstream version of mira but failed and without having realy checked it also the current version will fail with latest gcc. The build log says: g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPAC

Re: C++ help please

2002-10-24 Thread Bas Zoetekouw
Hi Allen! You wrote: > I hope i am not trobleing you by askin for your help. > i was asked to do this, and i have no idea how its > done, i dont know c++ at all and cant get out of doing > this, i was wondering if any one can help me. I think you should do your own homework. -- Kind regards,

C++ help please

2002-10-24 Thread Allen
I hope i am not trobleing you by askin for your help. i was asked to do this, and i have no idea how its done, i dont know c++ at all and cant get out of doing this, i was wondering if any one can help me. 1) extracts values from the standard input stream, and displays the smallest an the largest

C++ help please

2002-10-24 Thread Allen
I hope i am not trobleing you by askin for your help. i was asked to do this, and i have no idea how its done, i dont know c++ at all and cant get out of doing this, i was wondering if any one can help me. 1) extracts values from the standard input stream, and displays the smallest an the largest

Re: C++ help please

2002-10-24 Thread Bas Zoetekouw
Hi Allen! You wrote: > I hope i am not trobleing you by askin for your help. > i was asked to do this, and i have no idea how its > done, i dont know c++ at all and cant get out of doing > this, i was wondering if any one can help me. I think you should do your own homework. -- Kind regards,

Re: C++ help

1999-09-29 Thread Christian T. Steigies
On Wed, 29 Sep 1999, Antti-Juhani Kaijanaho wrote: > Educated guess: s/operator+=/FGString& operator+=/ Ok, thanks for both suggestions, will try at home. > > PS It seems the package is orphaned upstream, should I also orphan it then? > > If you are confident you can work without the help from

RE: C++ help

1999-09-29 Thread arto . astala
Hi, I think you are requested to give return type of the function that implements the operator += e.g. void operator+=(const FGString& other); and no, upstream orphaning is not a requirement to orphan it in Debian. t.aa Christian T. Steigies <[EMAIL PROTECTED]> Wed Sept 29, 1999 12:28 PM >

Re: C++ help

1999-09-29 Thread Antti-Juhani Kaijanaho
On Wed, Sep 29, 1999 at 11:28:19AM +0200, Christian T. Steigies wrote: > In file included from main.cc:2: > fgstring.h:34: ANSI C++ forbids declaration `operator +=' with no type > fgstring.h:35: ANSI C++ forbids declaration `operator +=' with no type > make: *** [main.o] Error 1 > > The relevant

C++ help

1999-09-29 Thread Christian T. Steigies
Hi, I was trying to update ftpgrab to standards version 3.0.0. As we are now also using gcc 2.95 (at least "now" on m68k), I ran into a problem when building the package: [EMAIL PROTECTED]:~/package/ftpgrab/ftpgrab-0.1.0>make g++ -c main.cc In file included from main.cc:2: fgstring.h:34: ANSI C++