Update HMMER to the latest available version. While here, add an option (WITH_PVM) so that cluster users can build hmmer with pvm support. CONFIGURE_ARGS have been set to the defaults used by the software authors (see http://hmmer.wustl.edu/#download). This includes enabling threads by default. On my FreeBSD-4.10 builds do fine. I have not tested this under 5.x myself. However, it appears that the thread checks in ${WRKSRC}/configure have been rewritten. I cannot judge if this will work in 5.x, though, due to my limited knowledge of this issue and my lack of experience with 5.x But I'm sure that any fellow committer reading this can do better than me at it :) (look for 'FreeBSD' within the file)
I just wanted to add something to the comments made before by me on the threads issue. Perhaps this serves to see if the port will build and run fine on 5.x. I contacted the software author asking for clarification on the threads issue and he thus replied: "Note that they were not patching HMMER per se here [talking about the patch-configure in 2.2.g], but a copy of the ACX_PTHREAD macro from the autoconf macro archive, which I include in my configure.ac. (so they oughtto've notified the ACX_PTHREAD author?) HMMER's relying on autoconf to get it the pthreads configuration right on all platforms. If any more problems arise here, check against the latest version of ACX_PTHREAD in the archive; if I need to update my copy of the macro in HMMER, let me know. That is, it would be best *not* to patch HMMER's copy of ACX_PTHREAD; better to patch ACX_PTHREAD itself, in the autoconf macro archive, then update HMMER's copy." Fernan -- Fernán Agüero | Instituto de Investigaciones Biotecnológicas email | fernan at { iib.unsam.edu.ar , mail.retina.ar } wwww | http://genoma.unsam.edu.ar/~fernan phone, fax | +54 11 { 4580-7255 ext 310, 4752-9639 }
State Changed From-To: open->closed Committed, thanks! pkg-plist fixed