genomics-geek · November 8, 2017 21:40 · Feb 13, 2017 · Feb 11, 2017 · Feb 11, 2017
diff --git a/.bash_rc → .bashrc b/.bash_rc → .bashrc
diff --git a/.bash_rc b/.bash_rc
@@ -106,6 +106,8 @@ PYENV=$HOME/.pyenv/bin
 PYENV_WRAPPER=$HOME/.pyenv/plugins/pyenv-virtualenv/bin
 PLENV=$HOME/.plenv/bin
 
+source $(brew --prefix autoenv)/activate.sh
+
 
 # Set up Python
 # ---------------------------------------

diff --git a/.bash_profile b/.bash_profile
@@ -0,0 +1,6 @@
+# .bash_profile
+
+
+# Load specific settings
+# --------------------------------------
+source $HOME/.bashrc
diff --git a/.bash_rc b/.bash_rc
@@ -0,0 +1,162 @@
+# .bashrc
+
+
+# Source global definitions
+# ---------------------------------------
+if [ -f /etc/bashrc ]; then
+        source /etc/bashrc
+fi
+
+
+# Set architecture flags
+# ---------------------------------------
+export ARCHFLAGS="-arch x86_64"
+
+
+# Set Default Editor
+# ---------------------------------------
+export EDITOR=/usr/bin/nano
+
+
+# Set default blocksize for ls, df, du
+# ---------------------------------------
+export BLOCKSIZE=1k
+
+
+# Make terminal better
+# ---------------------------------------
+alias cp='cp -iv'
+alias mv='mv -iv'
+alias mkdir='mkdir -pv'
+alias ls='ls'
+alias la='ls -a'
+alias ll='ls -aFGlAhp'
+alias qfind='find . -name'
+alias cleanupDS="find . -type f -name '*.DS_Store' -ls -delete"
+
+
+# Find memory hogs
+# ---------------------------------------
+alias memHogsTop='top -l 1 -o rsize | head -20'
+alias memHogsPs='ps wwaxm -o pid,stat,vsize,rss,time,command | head -10'
+
+
+# Find CPU hogs
+# ---------------------------------------
+alias cpuHogs='ps wwaxr -o pid,stat,%cpu,time,command | head -10'
+
+
+# Networking
+# ---------------------------------------
+alias netCons='lsof -i'
+alias flushDNS='dscacheutil -flushcache'
+alias lsock='sudo /usr/sbin/lsof -i -P'
+alias lsockU='sudo /usr/sbin/lsof -nP | grep UDP'
+alias lsockT='sudo /usr/sbin/lsof -nP | grep TCP'
+alias ipInfo0='ipconfig getpacket en0'
+alias ipInfo1='ipconfig getpacket en1'
+alias openPorts='sudo lsof -i | grep LISTEN'
+alias showBlocked='sudo ipfw list'
+
+
+# Kill all jobs for username
+# ---------------------------------------
+alias killalljobs='pkill -u $USER'
+
+
+#   ii:  display useful host related informaton
+# ---------------------------------------
+ii() {
+    echo -e "\nYou are logged on ${RED}$HOST"
+    echo -e "\nAdditionnal information:$NC " ; uname -a
+    echo -e "\n${RED}Users logged on:$NC " ; w -h
+    echo -e "\n${RED}Current date :$NC " ; date
+    echo -e "\n${RED}Machine stats :$NC " ; uptime
+    echo -e "\n${RED}Current network location :$NC " ; scselect
+    echo -e "\n${RED}Public facing IP Address :$NC " ;myip
+    #echo -e "\n${RED}DNS Configuration:$NC " ; scutil --dns
+    echo
+}
+
+
+# Set Path for PostgresSQL
+# ---------------------------------------
+POSTGRESQL=/Applications/Postgres.app/Contents/Versions/latest/bin
+
+
+# Manage node versions
+# ---------------------------------------
+export NVM_DIR="$HOME/.nvm"
+source $(brew --prefix nvm)/nvm.sh
+
+
+# Set Java home
+# ---------------------------------------
+export JAVA_HOME=/Library/Java/JavaVirtualMachines/jdk1.8.0_102.jdk/Contents/Home
+
+
+# Set Scala home
+# ---------------------------------------
+SCALA=/usr/local/bin/scala/bin  
+
+
+# Virtural environments
+# ---------------------------------------
+PYENV=$HOME/.pyenv/bin
+PYENV_WRAPPER=$HOME/.pyenv/plugins/pyenv-virtualenv/bin
+PLENV=$HOME/.plenv/bin
+
+
+# Set up Python
+# ---------------------------------------
+eval "$(pyenv init -)"
+export PIP_REQUIRE_VIRTUALENV=true
+export PYENV_VIRTUALENV_DISABLE_PROMPT=1
+
+gpip(){
+    PIP_REQUIRE_VIRTUALENV="" pip "$@"
+}
+test -f /usr/local/bin/virtualenvwrapper.sh && source /usr/local/bin/virtualenvwrapper.sh
+if which pyenv > /dev/null ; then eval "$(pyenv init -)"; fi
+
+
+# Setup Perl
+# ---------------------------------------
+eval "$(plenv init -)"
+
+
+# Manage connections
+# ---------------------------------------
+alias ssh_thor='ssh gonzalezma@dgdrhr-01'
+alias ssh_dgd='ssh gonzalezma@dgd'
+alias ssh_chop_hdfs='ssh [email protected]'
+alias ssh_nexus='ssh [email protected]'
+alias ssh_nexus_staging='ssh [email protected]'
+alias ssh_airflow='ssh [email protected]'
+alias ssh_airflow_staging='ssh [email protected]'
+
+
+# Manage databases
+# ---------------------------------------
+alias mysql_start='mysql.server start'
+alias mysql_stop='mysql.server stop'
+alias redis_start='redis-server /usr/local/etc/redis.conf'
+alias redis_stop='redis-cli -h 127.0.0.1 -p 6379 shutdown'
+alias mongodb_start='brew services start mongodb'
+alias mongodb_stop='brew services stop mongodb'
+
+
+# Set up Apache Spark
+# ---------------------------------------
+export PYSPARK_PYTHON=python3
+export SPARK_HOME=$HOME/Resources/spark/latest
+export PYTHONPATH=$SPARK_HOME/python/:$PYTHONPATH
+
+alias pyspark='$SPARK_HOME/bin/pyspark'
+alias spark-submit='$SPARK_HOME/bin/spark-submit'
+
+
+# export PATH
+# ---------------------------------------
+PATH=$PATH:/usr/local/sbin:$HOME/bin:$PYENV:$PLENV:$POSTGRESQL:$SCALA
+export PATH
diff --git a/README.md b/README.md
@@ -0,0 +1,8 @@
+# Setups
+
+This is to replicate environments across my machines.
+
+## Resources
+
++ Place all downloaded resources in $HOME/Resources
++ Manage versions by placing the latest version in the latest folder