Re: Htslib plugins [EXT]

2022-10-19 Thread Étienne Mollier
Hi James, James Bonfield, on 2022-10-19: > On Wed, Oct 19, 2022 at 06:38:56PM +0200, ?tienne Mollier wrote: > > If I run the test suite standalone (e.g. in autopkgtest), then > > the disabled test now passes, no problem. I guess I need a mean > > to get to the plugins while they are not installed

Re: Htslib plugins [EXT]

2022-10-19 Thread James Bonfield
On Wed, Oct 19, 2022 at 06:38:56PM +0200, ?tienne Mollier wrote: > If I run the test suite standalone (e.g. in autopkgtest), then > the disabled test now passes, no problem. I guess I need a mean > to get to the plugins while they are not installed yet (e.g. in > package building context). In any

Re: Htslib plugins [EXT]

2022-10-19 Thread Étienne Mollier
Hi again, Étienne Mollier, on 2022-10-19: > The "Protocol not supported" error sounds related to the github > issue. That being said, I haven't managed to get the suite to > work after adjusting the build to account properly for the > plugindir variable, neither by doubling $ symbols to account f

Re: Htslib plugins [EXT]

2022-10-19 Thread Étienne Mollier
Hi, James Bonfield, on 2022-10-19: > On Wed, Oct 19, 2022 at 10:27:24AM -0400, Aaron M. Ucko wrote: > > James Bonfield writes: > > > > > > > > --with-plugin-path='/usr/local/lib/htslib:/usr/local/libexec/htslib:$(plugindir)' > > > > I haven't been involved with this package, but I suspect th

Re: Htslib plugins [EXT]

2022-10-19 Thread James Bonfield
On Wed, Oct 19, 2022 at 10:27:24AM -0400, Aaron M. Ucko wrote: > James Bonfield writes: > > > > > --with-plugin-path='/usr/local/lib/htslib:/usr/local/libexec/htslib:$(plugindir)' > > I haven't been involved with this package, but I suspect that line was > supposed to have a double dollar s

Re: Htslib plugins

2022-10-19 Thread Étienne Mollier
Hi James, James Bonfield, on 2022-10-19: > The rules file for Htslib appear to use an undefined variable $(plugindir). > > https://salsa.debian.org/med-team/htslib/-/blob/master/debian/rules > > dh_auto_configure -- --enable-libcurl --enable-gcs --enable-s3 > --enable-plugins --with-

Re: Htslib plugins

2022-10-19 Thread Aaron M. Ucko
James Bonfield writes: > > --with-plugin-path='/usr/local/lib/htslib:/usr/local/libexec/htslib:$(plugindir)' I haven't been involved with this package, but I suspect that line was supposed to have a double dollar sign so as to yield a reference to your build system's plugindir variable.

Htslib plugins

2022-10-19 Thread James Bonfield
The rules file for Htslib appear to use an undefined variable $(plugindir). https://salsa.debian.org/med-team/htslib/-/blob/master/debian/rules dh_auto_configure -- --enable-libcurl --enable-gcs --enable-s3 --enable-plugins --with-plugin-dir='$(libdir)/htslib' --with-exter