Differences

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--- cutadapt-software [2021/12/15 07:33] – aorth
+++ cutadapt-software [2025/04/30 09:01] (current) – aorth
@@ Line 4: / Line 4: @@
 ===== Information =====
-  * Version: 3.5
+  * Version: 5.0
   * Added: June, 2015
-  * Updated: December, 2021
+  * Updated: April, 2025
   * Link: https://github.com/marcelm/cutadapt
 ===== Usage =====
-See available versions of cutadapt:
+See available versions:
 <code>$ module avail cutadapt</code>
 Load one version into your environment and run it:
-<code>$ module load cutadapt/3.5
+<code>$ module load cutadapt/5.0
 $ cutadapt</code>
@@ Line 21: / Line 21: @@
 Notes from the sysadmin during installation:
-<code>$ sudo mkdir -p /export/apps/cutadapt/3.5
+<code>$ module load python/3.10
-$ sudo chown aorth /export/apps/cutadapt/3.5
+$ sudo mkdir -p /export/apps/cutadapt/5.0
-$ python3 -m venv /export/apps/cutadapt/3.5
+$ sudo chown aorth:aorth /export/apps/cutadapt/5.0
-$ source /export/apps/cutadapt/3.5/bin/activate
+$ python -m venv /export/apps/cutadapt/5.0
-$ pip install --upgrade setuptools pip
+$ python -m pip install --upgrade pip wheel setuptools
-$ pip install cutadapt==3.5
+$ python -m pip install cutadapt==5.0
-$ sudo chown -R root:root /export/apps/cutadapt/3.5</code>
+$ sudo chown -R root:root /export/apps/cutadapt/5.0</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.