Dnaa

[SWP]

Hello-

Trying to install DNAA here. Following instructions in install I get the following error below. It appears that it's not finding BError.c, however, BError.c is found at the exact path it where it says it can't be found. I'm installing as root, so shouldn't be a permissions problem. Any advice would be awesome, thanks!

make all-recursive
make[1]: Entering directory `/home/user/software/dnaa-0.1.2'
Making all in dkbaseencoding
make[2]: Entering directory `/home/user/software/dnaa-0.1.2/dkbaseencoding'
gcc -DHAVE_CONFIG_H -I. -I.. -Wall -g -O2 -pthread -D_IOLIB=2 -D_FILE_OFFSET_BITS=64 -m64 -MT dkbaseencoding.o -MD -MP -MF .deps/dkbaseencoding.Tpo -c -o dkbaseencoding.o dkbaseencoding.c
mv -f .deps/dkbaseencoding.Tpo .deps/dkbaseencoding.Po
make[2]: *** No rule to make target `../bfast/bfast/BError.c', needed by `BError.o'. Stop.
make[2]: Leaving directory `/home/user/software/dnaa-0.1.2/dkbaseencoding'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `/home/user/software/dnaa-0.1.2'
make: *** [all] Error 2

[nilshomer]

Hello-

Trying to install DNAA here. Following instructions in install I get the following error below. It appears that it's not finding BError.c, however, BError.c is found at the exact path it where it says it can't be found. I'm installing as root, so shouldn't be a permissions problem. Any advice would be awesome, thanks!

make all-recursive
make[1]: Entering directory `/home/user/software/dnaa-0.1.2'
Making all in dkbaseencoding
make[2]: Entering directory `/home/user/software/dnaa-0.1.2/dkbaseencoding'
gcc -DHAVE_CONFIG_H -I. -I.. -Wall -g -O2 -pthread -D_IOLIB=2 -D_FILE_OFFSET_BITS=64 -m64 -MT dkbaseencoding.o -MD -MP -MF .deps/dkbaseencoding.Tpo -c -o dkbaseencoding.o dkbaseencoding.c
mv -f .deps/dkbaseencoding.Tpo .deps/dkbaseencoding.Po
make[2]: *** No rule to make target `../bfast/bfast/BError.c', needed by `BError.o'. Stop.
make[2]: Leaving directory `/home/user/software/dnaa-0.1.2/dkbaseencoding'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `/home/user/software/dnaa-0.1.2'
make: *** [all] Error 2

Show an "ls -alh" of your root DNAA directory. Did you make sure to follow the install instructions in INSTALL exactly?

[SWP]

Show an "ls -alh" of your root DNAA directory. Did you make sure to follow the install instructions in INSTALL exactly?

Almost exactly, I already had samtools and bfast installed and in my path, and I added the sym link for bfast.

Here's the ls...

drwxr-xr-x 10 501 cdrom 4.0K 2011-04-05 09:09 .
drwxr-xr-x 15 user users 4.0K 2011-04-05 09:08 ..
-rw-r--r-- 1 root root 34K 2011-04-05 09:08 aclocal.m4
-rw-r--r-- 1 501 cdrom 102 2009-09-30 00:04 AUTHORS
-rw-r--r-- 1 501 cdrom 45K 2009-09-30 00:04 autogen.sh
drwxr-xr-x 2 root root 4.0K 2011-04-05 09:08 autom4te.cache
-rw-r--r-- 1 501 cdrom 244 2010-04-28 22:30 ChangeLog
drwxr-xr-x 2 501 cdrom 4.0K 2011-04-05 09:08 config
-rw-r--r-- 1 root root 4.2K 2011-04-05 09:09 config.h
-rw-r--r-- 1 root root 3.9K 2011-04-05 09:08 config.h.in
-rw-r--r-- 1 501 cdrom 3.8K 2010-08-28 17:42 config.h.in~
-rw-r--r-- 1 root root 28K 2011-04-05 09:09 config.log
-rwxr-xr-x 1 root root 34K 2011-04-05 09:09 config.status
-rwxr-xr-x 1 501 cdrom 198K 2011-04-05 09:08 configure
-rw-r--r-- 1 501 cdrom 4.0K 2010-08-28 17:42 configure.ac
-rw-r--r-- 1 501 cdrom 83 2009-09-30 00:04 COPYING
drwxr-xr-x 3 501 cdrom 4.0K 2011-04-05 09:09 dkbaseencoding
drwxr-xr-x 2 501 cdrom 4.0K 2011-04-05 09:08 dlib
drwxr-xr-x 3 501 cdrom 4.0K 2011-04-05 09:09 dqc
drwxr-xr-x 3 501 cdrom 4.0K 2011-04-05 09:09 dtranslocations
drwxr-xr-x 3 501 cdrom 4.0K 2011-04-05 09:09 dutil
drwxr-xr-x 3 501 cdrom 4.0K 2011-04-05 09:09 dwgsim
-rw-r--r-- 1 501 cdrom 768 2010-04-07 09:21 INSTALL
-rw-r--r-- 1 501 cdrom 18K 2009-09-30 00:04 LICENSE
-rw-r--r-- 1 root root 24K 2011-04-05 09:09 Makefile
-rw-r--r-- 1 501 cdrom 220 2010-04-28 17:03 Makefile.am
-rw-r--r-- 1 root root 24K 2011-04-05 09:08 Makefile.in
-rw-r--r-- 1 501 cdrom 28 2009-09-30 00:04 NEWS
-rw-r--r-- 1 501 cdrom 2.4K 2010-04-07 09:21 README
-rw-r--r-- 1 root root 23 2011-04-05 09:09 stamp-h1

[nilshomer]

Where are the samtools and bfast symbolic links here? They should be in this directory.

[SWP]

thanks for your help <fixed>

Got the sym links in the right place

[masterpiece]

Hi all,

I found a blog showing how to set up the dnaa step by step. Hope this can solve the dnaa installation prob. BTW i've install under Fedora13 and its works

http://kevin-gattaca.blogspot.com/2010/03/compiling-bfast-and-dnaa-in-centos-54.html

kamal