SignalP6 software

apanagiotou · Janvier 31, 2023, 12:21

I am working on the parasite Theileria annulata and I would like to use the signalP6 tool to predict the signal peptides of every protein.
The SignalP6 web application is available here: BioLib
However, it seems the web application runs out with more than 50 peptides at a time.

If you could install the package on the cluster you would help me immensely

The proper channel to request it is:

Installation instructions are here:

github.com

fteufel/signalp-6.0/blob/main/installation_instructions.md

# SignalP 6.0 signal peptide prediction tool

These instructions refer to the Python package available for download at https://services.healthtech.dtu.dk/service.php?SignalP-6.0.

## Installation
SignalP 6.0 is distributed as a Python package.

1. Unpack the downloaded `tar.gz` file.
2. \[Optional\]: Create a python environment to install the package in.
3. Open the directory containing the downloaded package, and install it by executing the following command.
```
pip install signalp-6-package/
```

4. Copy the model files to the location at which the signalp module got installed. The model weight files are large, so this might take a while.
```
SIGNALP_DIR=$(python3 -c "import signalp; import os; print(os.path.dirname(signalp.__file__))" )
cp -r signalp-6-package/models/* $SIGNALP_DIR/model_weights/
```
5. The installer created a command `signalp6` on your system that is available within the python environment in which you ran step 2.

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I have also downloaded the package here:
/shared/projects/theileria_host_pathogen/signalP/signalp6_fast/signalp-6-package

Thank you in advance!
Aristeidis

dbenaben · Février 1, 2023, 10:31

Hello

SignalP 6.0 is already available on the IFB core cluster. Just load the module:

module load signalp/6.0

Best regards,