update

profiles/base/.aliases

@@ -4,7 +4,7 @@ if [ -f .cargo/bin/bat ]; then
 fi	
 alias clip='xsel --clipboard'
 alias groclean='rm \#*'
-alias sm='snakemake'
+alias latexclean='for i in `*aux *bbl *blg *fdb_latexmk *fls *lof *log *lot *out *synctex.gz *toc`; do rm $i; done'
 alias ls='ls --color=auto -lh'
 alias workon='source activate' # enable anaconda environ
 alias cwl="cwl-runner"
@@ -15,6 +15,18 @@ alias csum="ssh lcluster11 csum"
 alias csreport="ssh lcluster11 csreport"
 alias scancel="ssh lcluster11 scancel"
 
+# snakemake use all cores by default
+sm() {
+    if [[ "$*" == *"-j"* || "$*" == *"--jobs"* || "$*" == *"--cores"* ]]; then
+        snakemake $@
+    else
+        snakemake -j all $@
+    fi 
+}
+
+# extract whatever archive
+alias extract="dtrx"
+
 # faster sshfs
 #alias sshfs="sshfs -o Ciphers=arcfour,Compression=no,auto_cache"
 #alias sshfs="sshfs -o Compression=no,auto_cache"