Change master to main

.github/workflows/test.yml

@@ -3,7 +3,7 @@ name: Test
 on:
   push:
     branches:
-      - master
+      - main
   pull_request:
 
 jobs:

README.md

@@ -1,9 +1,9 @@
-<img src="https://github.com/compomics/ms2rescore/raw/master/img/ms2rescore_logo.png" width="150" height="150" alt="MS²Rescore"/>
+<img src="https://github.com/compomics/ms2rescore/raw/main/img/ms2rescore_logo.png" width="150" height="150" alt="MS²Rescore"/>
 <br/><br/>
 
 [![GitHub release](https://img.shields.io/github/release-pre/compomics/ms2rescore.svg?style=flat-square)](https://github.com/compomics/ms2rescore/releases)
 [![PyPI](https://flat.badgen.net/pypi/v/ms2rescore)](https://pypi.org/project/ms2rescore/)
-[![GitHub Workflow Status](https://flat.badgen.net/github/checks/compomics/ms2rescore/master)](https://github.com/compomics/ms2rescore/actions/)
+[![GitHub Workflow Status](https://flat.badgen.net/github/checks/compomics/ms2rescore/main)](https://github.com/compomics/ms2rescore/actions/)
 [![GitHub issues](https://img.shields.io/github/issues/compomics/ms2rescore?style=flat-square)](https://github.com/compomics/ms2rescore/issues)
 [![GitHub](https://img.shields.io/github/license/compomics/ms2rescore.svg?style=flat-square)](https://www.apache.org/licenses/LICENSE-2.0)
 [![Last commit](https://flat.badgen.net/github/last-commit/compomics/ms2rescore)](https://github.com/compomics/ms2rescore/commits/)

docs/source/userguide/configuration.rst

@@ -11,12 +11,12 @@ are not available in the CLI or GUI, or to set default values for options that a
 CLI or GUI.
 
 If no configuration file is passed, or some options are not configured, the
-`default values <https://github.com/compomics/ms2rescore/blob/master/ms2rescore/package_data/config_default.json>`_
+`default values <https://github.com/compomics/ms2rescore/blob/main/ms2rescore/package_data/config_default.json>`_
 for these settings will be used. Options passed from the CLI and the GUI will override
 the configuration file. The full configuration is validated against a
-`JSON Schema <https://github.com/compomics/ms2rescore/blob/master/ms2rescore/package_data/config_schema.json>`_.
+`JSON Schema <https://github.com/compomics/ms2rescore/blob/main/ms2rescore/package_data/config_schema.json>`_.
 A full example configuration file can be found in
-`ms2rescore/package_data/config_default.json <https://github.com/compomics/ms2rescore/blob/master/ms2rescore/package_data/config_default.json>`_.
+`ms2rescore/package_data/config_default.json <https://github.com/compomics/ms2rescore/blob/main/ms2rescore/package_data/config_default.json>`_.
 An overview of all options can be found below.
 
 

ms2rescore/report/templates/about.html

@@ -3,7 +3,7 @@
   <div class="card-body p-4">
     <div class="row">
       <div class="col-3 col-md-2 px-3">
-        <img class="logo" src="https://raw.githubusercontent.com/compomics/ms2rescore/master/img/ms2rescore_logo.svg" alt="MS2Rescore logo" />
+        <img class="logo" src="https://raw.githubusercontent.com/compomics/ms2rescore/main/img/ms2rescore_logo.svg" alt="MS2Rescore logo" />
       </div>
       <div class="col-9 col-md-10">
         <p class="lead">MS²Rescore performs sensitive rescoring of peptide-spectrum matches (PSMs) using features from predictors of peptide behavior in LC-MS, such as MS²PIP for spectrum prediction, and DeepLC for retention time prediction. Rescoring is performed with Percolator or Mokapot.</p>