Re: libgclib - symbol file - please kindly educate me

[Alex Mestiashvili <amestia@rsh2.donotuse.de>]

Hi Steffen,

I've pushed the new version of symbols file to the repository.
As far as I see in the new version of libgclib the 3 symbols ( the ones 
in the diff you provided) are removed. This is quite bad and probably it 
makes sense to discuss that with upstream, since software using these 
symbols will be broken.
Luckily none of the reverse deps of libgclib in Debian are using the 
removed symbols.

Best regards,
Ale

On 8/9/20 4:33 PM, Steffen Möller wrote:
> Hi Alex, hi Andreas,
>
> This is what I get when I remove the -1
>
> make[1]: Leaving directory '.../med-team/libgclib'
>    dh_perl
>    dh_link
>    dh_strip_nondeterminism
>    dh_compress
>    dh_fixperms
>    dh_missing
>    dh_dwz -a
>    dh_strip -a
>    dh_makeshlibs -a
> dpkg-gensymbols: error: some symbols or patterns disappeared in the
> symbols file: see diff output below
> dpkg-gensymbols: warning: debian/libgclib2/DEBIAN/symbols doesn't match
> completely debian/libgclib2.symbols
> --- debian/libgclib2.symbols (libgclib2_0.11.10-1_amd64)
> +++ dpkg-gensymbolsGWl6pJ       2020-08-09 14:16:35.796448318 +0200
> @@ -25,7 +25,7 @@
>   _Z10g2bit2baseh@Base 0.11.4
>   _Z10gcdb_allocj@Base 0.11.4
>   _Z10getFileExtPKc@Base 0.11.4
> - _Z10getOvlCodeR6GffObjS0_Rib@Base 0.11.10
> +#MISSING: 0.11.10-1# _Z10getOvlCodeR6GffObjS0_Rib@Base 0.11.10
>   _Z10getOvlCodeR6GffObjS0_Ribi@Base 0.11.10
>   _Z10parseFloatRPcRf@Base 0.11.4
>   _Z10replaceStrRPcS_@Base 0.11.4
> @@ -79,13 +79,13 @@
>   _Z14gfo_cmpRefByIDPvS_@Base 0.11.4
>   _Z14translateCodonPKc@Base 0.11.4
>   _Z15printEditScriptP12GXEditScript@Base 0.11.4
> - _Z15transcriptMatchR6GffObjS0_Ri@Base 0.11.10
> +#MISSING: 0.11.10-1# _Z15transcriptMatchR6GffObjS0_Ri@Base 0.11.10
>   _Z15transcriptMatchR6GffObjS0_Rii@Base 0.11.10
>   _Z15uint32_pack_bigPcj@Base 0.11.4
>   _Z16BED_addAttributeP8_IO_FILERiPKcz@Base 0.11.4
>   _Z16DefLTCompareProcI4GSegEiPvS1_@Base 0.11.4
>   _Z16gthreads_errExitiPKc@Base 0.11.4
> - _Z16singleExonTMatchR6GffObjS0_Ri@Base 0.11.10
> +#MISSING: 0.11.10-1# _Z16singleExonTMatchR6GffObjS0_Ri@Base 0.11.10
>   _Z16singleExonTMatchR6GffObjS0_Rii@Base 0.11.10
>   _Z17GreedyAlignRegionPKciiS0_iiP16CGreedyAlignDataP8CAlnTrimb@Base 0.11.4
>   _Z17GreedyAlignRegionPKciiS0_iiiiiP16CGreedyAlignDataP8CAlnTrimb@Base
> 0.11.4
> dh_makeshlibs: error: failing due to earlier errors
> make: *** [debian/rules:13: binary] Error 1
> dpkg-buildpackage: error: debian/rules binary subprocess returned exit
> status 2
>
> ?
>
> Steffen
>
> On 09.08.20 07:00, Andreas Tille wrote:
> > Hi Steffen,
> >
> > the patch you get from dh_makeshlibs needs to be edited.  You simply
> >
> >      sed -i 's/-1$//' debian/libgclib2.symbols
> >
> > should do the trick.
> >
> > Hope this helps
> >
> >        Andreas.
> >
> > On Sat, Aug 08, 2020 at 11:39:24PM +0200, Steffen Möller wrote:
> > > Hello,
> > >
> > > to get the build process to first not fail and then be quiet, I changed
> > > the .symbols file as follows:
> > >
> > > diff --git a/debian/libgclib2.symbols b/debian/libgclib2.symbols
> > > index 6bef43a..aef012c 100644
> > > --- a/debian/libgclib2.symbols
> > > +++ b/debian/libgclib2.symbols
> > > @@ -25,7 +25,8 @@libgclib.so.2 libgclib2 #MINVER#
> > >   _Z10g2bit2baseh@Base 0.11.4
> > >   _Z10gcdb_allocj@Base 0.11.4
> > >   _Z10getFileExtPKc@Base 0.11.4
> > > - _Z10getOvlCodeR6GffObjS0_Rib@Base 0.11.4
> > > + _Z10getOvlCodeR6GffObjS0_Rib@Base 0.11.10-1
> > > + _Z10getOvlCodeR6GffObjS0_Ribi@Base 0.11.10-1
> > >   _Z10parseFloatRPcRf@Base 0.11.4
> > >   _Z10replaceStrRPcS_@Base 0.11.4
> > >   _Z10startsWithPKcS0_@Base 0.11.4
> > > @@ -78,12 +79,15 @@libgclib.so.2 libgclib2 #MINVER#
> > >   _Z14gfo_cmpRefByIDPvS_@Base 0.11.4
> > >   _Z14translateCodonPKc@Base 0.11.4
> > >   _Z15printEditScriptP12GXEditScript@Base 0.11.4
> > > - _Z15transcriptMatchR6GffObjS0_Ri@Base 0.11.4
> > > + _Z15transcriptMatchR6GffObjS0_Ri@Base 0.11.10-1
> > > + _Z15transcriptMatchR6GffObjS0_Rii@Base 0.11.10-1
> > >   _Z15uint32_pack_bigPcj@Base 0.11.4
> > >   _Z16BED_addAttributeP8_IO_FILERiPKcz@Base 0.11.4
> > >   _Z16DefLTCompareProcI4GSegEiPvS1_@Base 0.11.4
> > >   _Z16gthreads_errExitiPKc@Base 0.11.4
> > > - _Z16singleExonTMatchR6GffObjS0_Ri@Base 0.11.4
> > > + _Z16singleExonTMatchR6GffObjS0_Ri@Base 0.11.10-1
> > > + _Z16singleExonTMatchR6GffObjS0_Rii@Base 0.11.10-1
> > > + _Z15transcriptMatchR6GffObjS0_Rii@Base 0.11.10-1
> > >   _Z17GreedyAlignRegionPKciiS0_iiP16CGreedyAlignDataP8CAlnTrimb@Base 0.11.4
> > >   _Z17GreedyAlignRegionPKciiS0_iiiiiP16CGreedyAlignDataP8CAlnTrimb@Base
> > > 0.11.4
> > >   _Z17gcvt_endian_setupv@Base 0.11.4
> > >
> > > I have no idea why there is now a -1 attached to the version. I just
> > > know that it does not work without it.
> > >
> > > Can I upload as is?
> > >
> > > Best,
> > >
> > > Steffen