Question: TargetP Error: zero output generated
0
gravatar for Louis Kok
3.1 years ago by
Louis Kok10
Singapore
Louis Kok10 wrote:

Hi All, when I execute TargetP using the test data provided in the tool, I receive the following error:

./targetp -P test/one.fsa

error as below:

open: can't stat file

apparent state: unit 3 named HOWIN_in

lately reading sequential formatted external IO

.

.

.

The output is as below:

### targetp v1.1 prediction results #####################

Number of query sequences: 1

Cleavage site predictions not incuded.

Using PLANT networks.

Name          Len     cTP    mTP    SP     other    Loc     RC

------------------------------------------------------------------

P48786;               1088         0.000       0.000       0.000      0.000           ?             5

------------------------------------------------------------------

cutoff                                   0.000       0.000       0.000      0.000      

 

I wonder if anyone of you has the same issue. Do let me know if there is any solution. Thanks in advance.  

 

targetp • 1.3k views
ADD COMMENTlink modified 2.9 years ago by emilygiroux0 • written 3.1 years ago by Louis Kok10

I've been having the exact same issue. I also have the same issue with the standalone package for signalp-3.0: open: can't stat file apparent state: unit 3 named input.how lately reading sequential formatted external IO error running HOW

These packages are both obtained from the same source, but I can't seem to find much help for these packages online.

ADD REPLYlink modified 2.9 years ago • written 2.9 years ago by emilygiroux0

I successfully run it in Ubuntu guest OS in my Windows 7 laptop even thought I still could not find the actual reason.

ADD REPLYlink written 2.9 years ago by Louis Kok10

I've also had much the same error (plus the string error running HOW) from signalp-3.0 (from the same team) when running on our cluster. I believe this is a bug in the wrapper script for targetp and signalp which naively uses a predictable temporary folder, which leads to rival copies of the HOW binary clashing over access to the same temp file.

ADD REPLYlink written 2.3 years ago by Peter5.7k

Did anyone manage to resolve this issue? I successfully installed and ran the test data for Signal P. However, I am getting the same error as detailed in the original question when I run the test data for Target P. TIA.

ADD REPLYlink written 12 months ago by cat.sargent0
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