auxgen error

6 replies [Last post]
telukir
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Joined: 08/05/2011

When I try to execute following lines :

mfold SEQ='PDB_00078.fasta' RUN_TYPE=text or mfold SEQ='PDB_00078.fasta' RUN_TYPE=html

I get the following error:

mfold version 3.5
REUSE= NO
auxgen failed
Job Aborted

gaine
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Joined: 01/07/2017
comments

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aikenwaisu
aikenwaisu's picture
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Joined: 10/06/2016
Error Mfold

unluckily I also have been unable to install it in the long run as I had different errors (see my different post), so I've given up on local mfold and been using the web server alternatively and additionally the Vienna package.
i am not sure if it's the mfold code itself or something with Ubuntu (i am also using Ubuntu), however I don't have these types of problems with compiling with other software program.
Pass4sure 200-120

telukir
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Joined: 08/05/2011
I am not sure why this is not

I am not sure why this is not been answered by anybody. But I really could not get rid of this problem. Did any one body found solution ?

Thanks,

zukerm
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Joined: 11/12/2010
auxgen fails in mfold

auxgen is a minor program in the mfold package that formats the sequence in an easy to read way. However, auxgen is the first program to be called by the mfold script. If the package is not installed, then the first error to occur will be the failure to find the auxgen program. Getting this error is an indication that the software is not installed. When setting up mfold, you must first run the "configure" script with the appropriate flags. Then run "make" and finally "make install" to place the executable files and energy files in the right place. If you do not use "--prefix=..." when configuring, then the executable files will be placed in /usr/local/bin when you install, and the energy files will be placed in /usr/local/share/mfold. That is, not using prefix is equivalent to using
./configure --prefix=/usr/local
To check if mfold is properly installed, issue the command:
echo $PATH|tr ':' '\012'
One of the listed directories must contain auxgen, nafold, ....; that is, all the executable files in the package. If you do not know how to use configure scripts in Unix/Linux, then ask someone to help you.

For the record, mfold is obsolete. The replacement UNAFold software is both better and easier to install. It may be downloaded from this site.

navduhan
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Joined: 09/12/2011
auxgen failed

i am facing the same problem
any suggestions..????

haarcuba
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Joined: 05/30/2016
this is because you're missing a fortran compiler

on Ubuntu: sudo apt-get install gfortran

then rebuild mfold from source (./configure, make, make install) and it will work.