From 3c28475dedf794bcf3ca7737d5602a806d5dafdb Mon Sep 17 00:00:00 2001 From: Ben Matern Date: Tue, 9 Aug 2016 13:27:05 +0200 Subject: [PATCH] Readme is better now. --- README.md | 17 +++++++++++++++-- 1 file changed, 15 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index a16892c..1be2884 100644 --- a/README.md +++ b/README.md @@ -14,9 +14,19 @@ python AlleleSubmissionEMBL.py Anaconda uses separate environments to run your programs in. Install Anaconda for python 2.7. https://www.continuum.io/downloads -To set up the environment in anaconda, run this in console: +To set up the environment in anaconda: + +Linux/Mac: ``` -conda create --name AlleleSubEnvironment biopython +conda create --name AlleleSubEnvironment biopython six +source activate AlleleSubEnvironment +pip install pyinstaller packaging +source deactivate +``` +Windows: +``` +conda create --name AlleleSubEnvironment biopython six pywin32 +call activate AlleleSubEnvironment && pip install pyinstaller packaging && call deactivate ``` ##Run using a bash or .bat script using anaconda @@ -53,6 +63,9 @@ tagctagct AGCTAGCTA gctagctagctag +##Output Data +The resulting report is in the form of an EMBL HLA Novel Allele submission flatfile. You can submit this to EMBL as a new allele. + ##For more information on EMBL's ENA format: http://www.ebi.ac.uk/ena/submit/sequence-submission http://www.ebi.ac.uk/ena/submit/entry-upload-templates