Hi! The existing BLAST package (https://github.com/NixOS/nixpkgs/blob/master/pkgs/applications/science/biology/ncbi-tools/default.nix) isn't working for me. Probably because it's broken on x64. So I'm trying to package the standalone executables from http://www.ncbi.nlm.nih.gov/books/NBK52640/ instead. I've created a package (https://github.com/jefdaj/nixpkgs/blob/master/pkgs/applications/science/biology/ncbi-blast/default.nix) but can't run the resulting programs. They all say something like:
$ blastn bash: /run/current-system/sw/bin/blastn: No such file or directory Based on https://www.biostars.org/p/12298/ I think I have the right architecture: $ uname -a Linux acro 3.14.29 #1-NixOS SMP Thu Jan 1 00:00:01 UTC 1970 x86_64 GNU/Linux $ file blastn blastn: ELF 64-bit LSB executable, x86-64, version 1 (SYSV), dynamically linked (uses shared libs), for GNU/Linux 2.6.9, stripped The "dynamically linked" part worries me though. Do I need to add build inputs referencing a specific gcc or something? Also including the suggested readelf command for completeness: $ readelf -a blastn | head -n20 ELF Header: Magic: 7f 45 4c 46 02 01 01 00 00 00 00 00 00 00 00 00 Class: ELF64 Data: 2's complement, little endian Ident Version: 1 (current) OS/ABI: UNIX - System V ABI Version: 0 Type: EXEC (Executable file) Machine: AMD x86-64 Version: 1 (current) Entry point address: 0xc95f20 Start of program headers: 64 (bytes into file) Start of section headers: 32499288 (bytes into file) Flags: Size of this header: 64 (bytes) Size of program header entries: 56 (bytes) Number of program headers entries: 9 Size of section header entries: 64 (bytes) Number of section headers entries: 32 Section header string table index: 31 If this is a dead end, I could also try porting the Debian package right? How hard is that? Thanks Jeff _______________________________________________ nix-dev mailing list nix-dev@lists.science.uu.nl http://lists.science.uu.nl/mailman/listinfo/nix-dev
