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Installing rna_denovo

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Installing rna_denovo


I tried using the Rosetta RNA tertiary structure modeling pipeline as described in your article "Modeling complex RNA tertiary folds with Rosetta."

My build is correct.

But every time I try to run -secstruct sec.txt -fasta fasta.fasta

I am getting error as

subprocess.check_call([str(elem) for elem in cmdline.split()])
  File "/usr/lib/python2.7/", line 185, in check_call
    retcode = call(*popenargs, **kwargs)
  File "/usr/lib/python2.7/", line 172, in call
    return Popen(*popenargs, **kwargs).wait()
  File "/usr/lib/python2.7/", line 394, in __init__
    errread, errwrite)
  File "/usr/lib/python2.7/", line 1047, in _execute_child
    raise child_exception
OSError: [Errno 2] No such file or directory

going back to the code, in line 75,

"rna_denovo -score:weights stepwise/rna/rna_res_level_energy4.wts -minimize_rna true -use_legacy_job_distributor true -restore_talaris_behavior true "

this rna_denovo is called.

But, in rosetta bin there is no .exe called rna_denovo, instead I found,


not sure, why is name mismatch and how to call rna_denovo.

So my pipeline is not working.

Can you help me resolving this issue?



Post Situation: 
Thu, 2019-04-25 23:59
Tanusree Chaudhuri

Hi, Tanusree -- 

If you just change all occurrences of "rna_denovo" to the specific version you want ("rna_denovo.default.linuxgccrelease" for the dynamically linked version, "rna_denovo.static.linuxgccrelease" for the static version) you should be okay.

For a little technical detail, although Rosetta is typically built with scons (that's probably the build you used!) we can also build with cmake (you may notice main/source/cmake), which had long been traditional in our lab. The cmake build generates executable symlinks with no suffixes attached, and it looks like this script improperly assumed that you were using that build system. Sorry!

Fri, 2019-04-26 06:22