MEME instructions

.gitignore

@@ -5,7 +5,7 @@ bigBedToBed
 dpacman/data/remap/*.log
 dpacman/data/remap/temp.py
 dpacman/data/tfclust/figures
-dpacman/softwares
+dpacman/softwares/meme*
 dpacman/data/remap/crm_example.csv
 dpacman/data/remap/crm_example_ERG.csv
 tree.txt

dpacman/softwares/README.md

@@ -0,0 +1,49 @@
+Downloaded MEME on 7/4/2025 
+
+Check here for prerequisites:  https://meme-suite.org/meme/doc/install.html#prerequisite
+```
+which perl
+perl --version
+
+which python
+python3 --version
+
+dpkg -l | grep zlib
+
+which gs
+gs --version
+```
+Didn't have zlib, so did 
+```
+sudo apt-get install zlib1g-dev
+```
+
+```
+wget https://meme-suite.org/meme/meme-software/5.5.8/meme-5.5.8.tar.gz 
+```
+Then, following the instructions on this website: https://meme-suite.org/meme/doc/install.html
+```
+tar zxf meme-5.5.8.tar.gz
+cd meme-5.5.8
+./configure --prefix=$HOME/meme --enable-build-libxml2 --enable-build-libxslt
+make
+make test
+make install
+```
+
+The configure command recommended these follow-up steps:
+```
+  Run the following commands to compile, test and install meme:
+        make
+        make test
+        make install
+
+  Then make sure that the following two directories are added to
+  your PATH variable:
+        /home/a03-svincoff/meme/bin
+        /home/a03-svincoff/meme/libexec/meme-5.5.8
+
+  This can often be done by editing the file named .profile to add
+  the following line:
+        export PATH=/home/a03-svincoff/meme/bin:/home/a03-svincoff/meme/libexec/meme-5.5.8:$PATH
+```