Generally, it's difficult to solve compiling problems like
these at long distance. One wants to be at the computer
itself, to try this and that and see the result from each
attempt.
For initial experiments, I would suggest finding someone
in your city who already has samtools and bcftools working
on their computer and who would let you do some experiments
using their machine. If there is a DNA sequencing facility,
or a lab which does DNA sequencing, they might know if any
of their clients already use samtools or bcftools.
- tom blackwell -
On Sat, 14 Nov 2015, Xavier Olessa-Dragon wrote:
Hi,
first of all i am an absolute novice, i never used neither make or git before and only
installed them and familiarized with them in order to use samtools, bcftools and other bio
informatics tools (i am Biology Student and i am particulary interested by the tools that
allow to move between FASTA and VCF files). When i cd to either the samtools folder or the
bcftools folder and try to "make" them as instructed, i receive error messages that
i added. I absolutely do not rule out that i dot installed make right or did not set a correct
PATH. Those are the error messages (the quote signs are added and are not part of what is on
screen".
"Acer@PC-de-Acer MINGW32 ~/samtools-1.2
$ make
gcc -g -Wall -O2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_CURSES_LIB=1
-I. -Ihtslib-1.2.1 -c -o bam_index.o bam_index.c
process_begin: CreateProcess(NULL, gcc -g -Wall -O2 -D_FILE_OFFSET_BITS=64
-D_LARGEFILE64_SOURCE -D_CURSES_LIB=1 -I. -Ihtslib-1.2.1 -c -o bam_index.o
bam_index.c, ...) failed.
make (e=2): Le fichier sp?cifi? est introuvable.
make: *** [bam_index.o] Erreur 2 "
"
Acer@PC-de-Acer MINGW32 ~/bcftools-1.2
$ make
cd htslib-1.2.1 && C:/Program Files/GnuWin32/bin/make lib-static
/usr/bin/sh: C:/Program: No such file or directory
make: *** [htslib-1.2.1/libhts.a] Erreur 127 "
Could you help me please ?
Thanks a lot
Best Regards
Sylene Mythridate
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