ALLPATHS: does it work?

[anyone1985]

"./configure --with-no_gcc_check" can help me configure the program smoothly. However, when I "make -j4", the program come across the fatal error. The compiler can not identify some string.

You can achieve the same result without having to edit "mysterious" files with:

./configure --with-no_gcc_check

Hope this helps.

[Torst]

But it seems not to be suit for anyone. Many people maybe not work with C/C++. To change the MakeFile, it is not practical. So, I guess it should decrease the version of GCC

You can achieve the same result without having to edit "mysterious" files with:

./configure --with-no_gcc_check

Hope this helps.

[anyone1985]

But it seems not to be suit for anyone. Many people maybe not work with C/C++. To change the MakeFile, it is not practical. So, I guess it should decrease the version of GCC

In order to overcame this problem you have only to edit a bit the Makefile, changing the compiler that is required.
I think that this operation doesn't create troubles.

[francesco.vezzi]

In order to overcame this problem you have only to edit a bit the Makefile, changing the compiler that is required.
I think that this operation doesn't create troubles.

[Torst]

I can't even get as far as you have! It seems to require gcc 4.3.2, I only have 4.1.2.

Have you looked at http://www.broad.mit.edu/crd/wiki/index.php/Build_FAQ ?

[francesco.vezzi]

Hi,
I downloaded ALLPATHS from MIT site ftp://ftp.broad.mit.edu/pub/crd/ALLPATHS/Release-2-0/ but I have a lot of problems running it on the test example that you can download with the program.
I spend almost one day to compile it, and I was also oblige to comment a line of the makefile.
Now I'm trying to use it but I'm having troubles. The first step of the procedure consist in exporting the data calling allpath with the option TARGETS=import .
After few second I received the error message:

PrepareAllPathsInput SOURCE_DIR=$(SOURCE) DATA_DIR=$(DATA) READS_OUT="reads_orig" STATS_IN=expected_lib_stats
/bin/sh: PrepareAllPathsInput: not found
make: *** [example/Staph/MyTestData/ploidy] Error 127


My question are: anybody has this problem? There is somebody that was able to install and use ALLPATHS?

Francesco