Question: Cannot run UNAfold, error in shared library
0
gravatar for juanma_lace
4.7 years ago by
juanma_lace20
Argentina
juanma_lace20 wrote:

I'm having troubles running UNAFold. 

I'm executing a perl script sumirofold.pl) that calls for a UNAFold query. The UNAFold return an error as next:

 perl /usr/bin/UNAFold.pl -X 1 --ann ss-count 1_scaffold01901.fsa
Checking for boxplot_ng... found, supports Postscript
Checking for hybrid-plot-ng... hybrid-plot-ng: error while loading shared libraries: libgd.so.2: cannot open shared object file: No such file or directory
found, supports Postscript
Checking for sir_graph_ng or sir_graph... found, supports Postscript
Checking for ps2pdfwr... found
Couldn't read 1_scaffold01901.fsa.plot: No such file or directory at /usr/bin/h-num.pl line 16.
Exit status 2 from h-num.pl

I have installed all required dependencies but still cannot execute the script.

Thank you

 

unafold rna-seq chip-seq • 1.7k views
ADD COMMENTlink modified 2.9 years ago by Biostar ♦♦ 20 • written 4.7 years ago by juanma_lace20
0
gravatar for hpmcwill
4.7 years ago by
hpmcwill1.1k
United Kingdom
hpmcwill1.1k wrote:

From the error messages it appears that the 'hybrid-plot-ng' component of UNAFold requires the GD library.

The GD library can be installed by:

A. Debian based Linux systems (e.g. Debian Linux, Ubuntu, Linux Mint, Bio-Linux, etc.)

sudo apt-get install libgd2-xpm

B. RedHat based Linux systems (e.g. RHEL, Fedora, etc.)

yum install gd

C. For other platforms or Linux distributions check the package repositories for suitable packages. If absolutely necessary you can try compiling from source (see http://www.libgd.org/).

 

ADD COMMENTlink written 4.7 years ago by hpmcwill1.1k
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