Package Details: ncbi-toolkit 29.2.0-1

Git Clone URL: https://aur.archlinux.org/ncbi-toolkit.git (read-only, click to copy)
Package Base: ncbi-toolkit
Description: Applications, scripts and C++ libraries for the analysis of biological data
Upstream URL: https://github.com/ncbi/ncbi-cxx-toolkit-public
Licenses: custom
Conflicts: blast+-bin
Provides: blast+-bin
Submitter: None
Maintainer: mschu
Last Packager: mschu
Votes: 1
Popularity: 0.000000
First Submitted: 2009-04-01 07:27 (UTC)
Last Updated: 2025-07-07 13:55 (UTC)

Latest Comments

mollitz commented on 2018-10-11 16:59 (UTC) (edited on 2018-10-11 16:59 (UTC) by mollitz)

cpio is missing as build dependency

wheatdog commented on 2018-02-01 14:11 (UTC)

Maybe this package can depend on gcc47 since it can't be compile by gcc > 4.9.

wheatdog commented on 2018-02-01 14:00 (UTC) (edited on 2018-02-01 14:05 (UTC) by wheatdog)

missing dependency lzo2.

m.gruenstaeudl commented on 2015-12-10 10:29 (UTC) (edited on 2015-12-10 10:34 (UTC) by m.gruenstaeudl)

The package doesn't compile with the latest gcc compiler (i.e., gcc 5.3.0). ==> Starting build()... configure: loading site script ./src/build-system/config.site configure: creating cache config.cache checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking for a BSD-compatible install... /usr/bin/install -c checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ANSI C... none needed checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes adjusted C compiler: /usr/bin/gcc adjusted C++ compiler: /usr/bin/g++ configure: error: Do not know how to build MT-safe with compiler /usr/bin/g++ 5.3.0 Upon removing flag "--with-mt" from PKGBUILD: ==> Starting build()... configure: loading site script ./src/build-system/config.site configure: creating cache config.cache checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking for a BSD-compatible install... /usr/bin/install -c checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ANSI C... none needed checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes adjusted C compiler: /usr/bin/gcc adjusted C++ compiler: /usr/bin/g++ Compiler /usr/bin/g++ 5.3.0 is not fully supported. Consult doc/config.html\#ref_Compilers for the list of fully supported platforms/compilers. Do you still want to proceed (at your own risk)? [y/N] y configure: WARNING: Proceeding at your own risk... configure: error: Do not know how to compile 64-bit with compiler /usr/bin/g++ 5.3.0 x86_64-unknown-linux-gnu:UNKNOWN

mschu commented on 2013-05-19 13:47 (UTC)

This is a giflib issue that the devs introduced in version 4.2. There is a patch available for giflib=4.2 but it is not used in the Archlinux package. For the moment, try using giflib<4.2 or >=5.

balwierz commented on 2013-05-18 14:10 (UTC)

Does not compile (anymore): /tmp/yaourt-tmp/aur-ncbi-toolkit/src/ncbi_cxx--9_0_0/src/util/image/image_io_gif.cpp: In member function ‘virtual void ncbi::CImageIOGif::WriteImage(const ncbi::CImage&, ncbi::CNcbiOstream&, ncbi::CImageIO::ECompress)’: /tmp/yaourt-tmp/aur-ncbi-toolkit/src/ncbi_cxx--9_0_0/src/util/image/image_io_gif.cpp:351:51: error: ‘QuantizeBuffer’ was not declared in this scope qdata_ptr, cmap->Colors) == GIF_ERROR) { ^