Differences

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--- cutadapt-software [2019/01/20 10:42] – aorth
+++ cutadapt-software [2021/12/15 07:33] (current) – aorth
@@ Line 4: / Line 4: @@
 ===== Information =====
-  * Version: 1.18
+  * Version: 3.5
   * Added: June, 2015
-  * Updated: January, 2019
+  * Updated: December, 2021
   * Link: https://github.com/marcelm/cutadapt
@@ Line 15: / Line 15: @@
 Load one version into your environment and run it:
-<code>$ module load cutadapt/1.18
+<code>$ module load cutadapt/3.5
 $ cutadapt</code>
@@ Line 21: / Line 21: @@
 Notes from the sysadmin during installation:
-<code>$ sudo mkdir -p /export/apps/cutadapt/1.18
+<code>$ sudo mkdir -p /export/apps/cutadapt/3.5
-$ sudo chown aorth /export/apps/cutadapt/1.18
+$ sudo chown aorth /export/apps/cutadapt/3.5
-$ python36 -m venv /export/apps/cutadapt/1.18
+$ python3 -m venv /export/apps/cutadapt/3.5
-$ . /export/apps/cutadapt/1.18/bin/activate
+$ source /export/apps/cutadapt/3.5/bin/activate
-$ pip install --upgrade pip setuptools
+$ pip install --upgrade setuptools pip
-$ pip install cutadapt==v1.18
+$ pip install cutadapt==3.5
-$ sudo chown -R root:root /export/apps/cutadapt/1.18</code>
+$ sudo chown -R root:root /export/apps/cutadapt/3.5</code>
+Installation is greatly simplified by using Python 3's built-in venv module to create a dedicated environment, then use standard pip to install cutadapt and its dependencies.