<div dir="ltr">Hi Aaron,<div>I tried to compile ncbi-blast 2.2.29 to prepare the package.</div><div>I updated the patches to match the new release, but it fails to compile at makemblindex:</div><div><br></div><div><div>/usr/bin/g++ -std=gnu++11 -Wl,--enable-new-dtags -rdynamic -pthread -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -Wl,--as-needed -O -fPIE -pie main.o mkindex_app.o -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,-rpath-link,/home/osallou/Desktop/DEBIAN-MED/ncbi-blast+/ncbi-blast+/ncbi-blast-2.2.29+-src/c++/BUILD/lib -L/home/osallou/Desktop/DEBIAN-MED/ncbi-blast+/ncbi-blast+/ncbi-blast-2.2.29+-src/c++/BUILD/lib -lxalgoblastdbindex -lblast -lcomposition_adjustment -lseqdb -lblastdb -lxobjread -lvariation -lcreaders -lsubmit -lxobjutil -ltables -lxconnect -lxobjmgr -lgenome_collection -lseqedit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lz -lbz2 -lnsl -ldl -lm -lpthread -o makembindex </div>
<div>/home/osallou/Desktop/DEBIAN-MED/ncbi-blast+/ncbi-blast+/ncbi-blast-2.2.29+-src/c++/BUILD/lib/libxobjread.so: undefined reference to `ncbi::objects::CSeq_submit_Base::SetSub(ncbi::objects::CSubmit_block&)'</div>
<div>/home/osallou/Desktop/DEBIAN-MED/ncbi-blast+/ncbi-blast+/ncbi-blast-2.2.29+-src/c++/BUILD/lib/libxobjread.so: undefined reference to `ncbi::objects::CSeq_submit_Base::ResetData()'</div><div>/home/osallou/Desktop/DEBIAN-MED/ncbi-blast+/ncbi-blast+/ncbi-blast-2.2.29+-src/c++/BUILD/lib/libxobjread.so: undefined reference to `ncbi::objects::CSubmit_block_Base::GetTypeInfo()'</div>
<div>/home/osallou/Desktop/DEBIAN-MED/ncbi-blast+/ncbi-blast+/ncbi-blast-2.2.29+-src/c++/BUILD/lib/libxobjread.so: undefined reference to `ncbi::objects::CSeq_submit_Base::C_Data::DoSelect(ncbi::objects::CSeq_submit_Base::C_Data::E_Choice, ncbi::CObjectMemoryPool*)'</div>
<div>/home/osallou/Desktop/DEBIAN-MED/ncbi-blast+/ncbi-blast+/ncbi-blast-2.2.29+-src/c++/BUILD/lib/libxobjread.so: undefined reference to `ncbi::objects::CSeq_submit_Base::CSeq_submit_Base()'</div><div>/home/osallou/Desktop/DEBIAN-MED/ncbi-blast+/ncbi-blast+/ncbi-blast-2.2.29+-src/c++/BUILD/lib/libxobjread.so: undefined reference to `ncbi::objects::CSeq_submit_Base::C_Data::ResetSelection()'</div>
<div>/home/osallou/Desktop/DEBIAN-MED/ncbi-blast+/ncbi-blast+/ncbi-blast-2.2.29+-src/c++/BUILD/lib/libxobjread.so: undefined reference to `vtable for ncbi::objects::CSeq_submit'</div></div><div>....</div><div><br></div>
<div>Do you have any idea of what is missing?</div><div><br></div><div>Thanks for your help</div><div><br></div><div>Olivier</div><div><br></div></div><div class="gmail_extra"><br><br><div class="gmail_quote">2014-06-06 22:24 GMT+02:00 olivier sallou <span dir="ltr"><<a href="mailto:olivier.sallou@gmail.com" target="_blank">olivier.sallou@gmail.com</a>></span>:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><p dir="ltr"><br>
Le 6 juin 2014 21:57, "Aaron M. Ucko" <<a href="mailto:ucko@debian.org" target="_blank">ucko@debian.org</a>> a écrit :</p><div class=""><br>
><br>
> Andreas Tille <<a href="mailto:andreas@an3as.eu" target="_blank">andreas@an3as.eu</a>> writes:<br>
><br>
> > Hi Aaron,<br>
><br>
> Hi, Andreas.<br>
><br>
> > since some time there is a new version of ncbi-blast+. Do you intend to<br>
> > update the Debian package? Just tell us if we should step in for<br>
> > whatever reason.<br>
><br>
> I thought Olivier was still the package's primary maintainer (as he's<br>
> certainly welcome to be), but I can step in if necessary. Thanks for<br>
> asking!<br></div>
Hi<br>
I still manage updates. In fact, without any other request, I was waiting for a pending bug fix as i did not see any major modification in this release.<p></p>
<p dir="ltr">But i can upload this release this week-end.</p><span class="HOEnZb"><font color="#888888">
</font></span><p dir="ltr"><span class="HOEnZb"><font color="#888888">Olivier</font></span></p><div class=""><br>
><br>
> --<br>
> Aaron M. Ucko, KB1CJC (amu at <a href="http://alum.mit.edu" target="_blank">alum.mit.edu</a>, ucko at <a href="http://debian.org" target="_blank">debian.org</a>)<br>
> <a href="http://www.mit.edu/~amu/" target="_blank">http://www.mit.edu/~amu/</a> | <a href="http://stuff.mit.edu/cgi/finger/?amu@monk.mit.edu" target="_blank">http://stuff.mit.edu/cgi/finger/?amu@monk.mit.edu</a><br>
</div><p></p>
</blockquote></div><br><br clear="all"><div><br></div>-- <br><pre cols="72">gpg key id: 4096R/326D8438 (<a href="http://keyring.debian.org/" target="_blank">keyring.debian.org</a>)</pre><pre cols="72">Key fingerprint = 5FB4 6F83 D3B9 5204 6335 D26D 78DC 68DB 326D 8438</pre>
</div>