[minor] Replace theaidenlab with aidenlab

AWS/README.md

@@ -1,2 +1,2 @@
-Extensive instructions, including how to create and launch an instance, are 
-available [on the wiki](https://github.com/theaidenlab/juicer/wiki/Running-Juicer-on-Amazon-Web-Services)
+Extensive instructions, including how to create and launch an instance, are
+available [on the wiki](https://github.com/aidenlab/juicer/wiki/Running-Juicer-on-Amazon-Web-Services)

CPU/README.md

@@ -4,6 +4,6 @@
 
 Report bugs using the Issues tab. 
 
-Follow the documentation on [the wiki](https://github.com/theaidenlab/juicer/wiki/Installation) for dependencies, directory structure, and usage.
+Follow the documentation on [the wiki](https://github.com/aidenlab/juicer/wiki/Installation) for dependencies, directory structure, and usage.
 
-**PLEASE NOTE:**  The CPU version is fine for small Hi-C experiments, but any reasonably sized experiment will take an extremely long time to run and therefore should be run [on a cluster](https://github.com/theaidenlab/juicer/wiki/Running-Juicer-on-a-cluster) or [in the cloud](https://github.com/theaidenlab/juicer/wiki/Running-Juicer-on-Amazon-Web-Services).
+**PLEASE NOTE:**  The CPU version is fine for small Hi-C experiments, but any reasonably sized experiment will take an extremely long time to run and therefore should be run [on a cluster](https://github.com/aidenlab/juicer/wiki/Running-Juicer-on-a-cluster) or [in the cloud](https://github.com/aidenlab/juicer/wiki/Running-Juicer-on-Amazon-Web-Services).

Docker/install-dependencies.sh

@@ -50,8 +50,8 @@ curl -OL "https://github.com/4dn-dcic/pairix/archive/${PAIRIX_VERSION}.zip" && \
     rm -rf "${PAIRIX_VERSION}.zip" "pairix-${PAIRIX_VERSION}"
 
 # Install Juicer
-git clone --branch encode https://github.com/theaidenlab/juicer.git && \    
-    chmod +x juicer/CPU/* juicer/CPU/common/* juicer/misc/* 
+git clone --branch encode https://github.com/aidenlab/juicer.git && \
+    chmod +x juicer/CPU/* juicer/CPU/common/* juicer/misc/*
 #    && \
 #    find -mindepth 1 -maxdepth 1  -type d -not -name "CPU" -not -name ".git" -not -name "misc" | xargs rm -rf
 

LSF/README.md

@@ -6,4 +6,4 @@
 
 We do not use LSF in our lab.  We welcome other developers to update the LSF version to be consistent with the AWS LSF-like version.
 
-Report bugs using the Issues tab. See the [documentation on the wiki](https://github.com/theaidenlab/juicer/wiki/Running-Juicer-on-a-cluster) to understand how to install and run Juicer.
+Report bugs using the Issues tab. See the [documentation on the wiki](https://github.com/aidenlab/juicer/wiki/Running-Juicer-on-a-cluster) to understand how to install and run Juicer.

README.md

@@ -101,7 +101,7 @@ Instructions for installing the latest version of CUDA can be found on the
 
 The native libraries included with Juicer are compiled for CUDA 7 or CUDA 7.5.
 See the [download page for Juicer
-Tools](https://github.com/theaidenlab/juicer/wiki/Download).
+Tools](https://github.com/aidenlab/juicer/wiki/Download).
 
 Other versions of CUDA can be used, but you will need to download the
 respective native libraries from
@@ -115,7 +115,7 @@ If you cannot access a GPU, you can run the [CPU version of HiCCUPS](https://git
 
 ### Building new jars
 
-See the Juicebox documentation at <https://github.com/theaidenlab/Juicebox> for
+See the Juicebox documentation at <https://github.com/aidenlab/Juicebox> for
 details on building new jars of the juicer_tools.
 
 ------------

SLURM/README.md

@@ -1 +1 @@
-Please see the [wiki](https://github.com/theaidenlab/juicer/wiki/Running-Juicer-on-a-cluster) for extensive instructions
+Please see the [wiki](https://github.com/aidenlab/juicer/wiki/Running-Juicer-on-a-cluster) for extensive instructions

UGER/README.md

@@ -1 +1 @@
-Please see the [wiki](https://github.com/theaidenlab/juicer/wiki/Running-Juicer-on-a-cluster) for extensive instructions
+Please see the [wiki](https://github.com/aidenlab/juicer/wiki/Running-Juicer-on-a-cluster) for extensive instructions