v1.1.0

alek0991 · Oct 29, 2021 · 65757ef · 65757ef
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diff --git a/ReadMe.md b/ReadMe.md
@@ -56,11 +56,12 @@ Manual installation: Software requirements
 Execution:
 ===========
 
-Use the following command to see all the available options in iSAFE with detailed instructions.
+Use the following command to see all the available options in iSAFE.
 
 ```sh
 isafe --help
 ```
+These detailed instructions are also provided in [./help.txt](https://github.com/alek0991/iSAFE/blob/master/help.txt).
 
 **Note:** If you have a script for iSAFE<v1.1.0 and want to update to the latest version you should change the commands from 
 ```sh

diff --git a/help.txt b/help.txt
@@ -1,20 +1,15 @@
-usage: isafe.py [-h] [-v] [--format FORMAT] --input INPUT --output OUTPUT
-                [--vcf-cont VCF_CONT] [--sample-case SAMPLE_CASE]
-                [--sample-cont SAMPLE_CONT] [--AA AA] [--region REGION]
-                [--MaxRegionSize MAXREGIONSIZE]
-                [--MinRegionSize-bp MINREGIONSIZE_BP]
-                [--MinRegionSize-ps MINREGIONSIZE_PS]
-                [--MaxGapSize MAXGAPSIZE] [--window WINDOW] [--step STEP]
-                [--topk TOPK] [--MaxRank MAXRANK] [--MaxFreq MAXFREQ]
-                [--RandomSampleRate RANDOMSAMPLERATE] [--ForceRandomSample]
-                [--IgnoreGaps] [--StatusOff] [--WarningOff] [--OutputPsi]
-                [--SAFE]
+usage: isafe [-h] [-v] [--format FORMAT] --input INPUT --output OUTPUT [--vcf-cont VCF_CONT]
+             [--sample-case SAMPLE_CASE] [--sample-cont SAMPLE_CONT] [--AA AA] [--region REGION]
+             [--MaxRegionSize MAXREGIONSIZE] [--MinRegionSize-bp MINREGIONSIZE_BP]
+             [--MinRegionSize-ps MINREGIONSIZE_PS] [--MaxGapSize MAXGAPSIZE] [--window WINDOW] [--step STEP]
+             [--topk TOPK] [--MaxRank MAXRANK] [--MaxFreq MAXFREQ] [--RandomSampleRate RANDOMSAMPLERATE]
+             [--ForceRandomSample] [--IgnoreGaps] [--StatusOff] [--WarningOff] [--OutputPsi] [--SAFE]
 
 ====================================================================
 iSAFE: (i)ntegrated (S)election of (A)llele (F)avored by (E)volution
 ====================================================================
 Source code & further instructions can be found at: https://github.com/alek0991/iSAFE
-iSAFE v1.0.7
+iSAFE v1.1.0
 --------------------------------------------------------------------
 
 optional arguments:

diff --git a/setup.py b/setup.py
@@ -2,7 +2,6 @@
 # -*- coding: utf-8 -*-
 
 from isafe import __version__
-
 try:
     from setuptools import setup
 except ImportError:
@@ -47,4 +46,4 @@
     ],
     test_suite='tests',
     tests_require=test_requirements
-)
+)