Vahid Mirjalili vmirly
vmirly
/ geo_chart_us_states.js
Created
February 20, 2016 22:01
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| google.charts.load('current', {'packages':['geochart']}); | |
| google.charts.setOnLoadCallback(drawRegionsMap); | |
| function drawRegionsMap() { | |
| var data = google.visualization.arrayToDataTable([ | |
| ['State', 'Value'], | |
| ['CA', 780], | |
| ['MI', 300], | |
| ['NY', 400], |
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| # assume that job1.sh is already running | |
| # we want to start jab2.sh right after job1.sh finishes | |
| pid=$(ps -o pid= -C job1.sh) | |
| while [ -d /proc/$pid ]; do | |
| echo "process $pid still running" | |
| sleep 60 | |
| done && ./job2.sh |
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| $if Bash | |
| # Search history back and forward using page-up and page-down | |
| "\e[5~": history-search-backward | |
| "\e[6~": history-search-forward | |
| ## arrow up | |
| "\e[A":history-search-backward | |
| ## arrow down | |
| "\e[B":history-search-forward |
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| alias cp='cp -i' | |
| alias rm='rm -i' | |
| alias mv='mv -i' | |
| alias ls='ls --color=auto ' | |
| alias grep='grep --color -E ' | |
| echo -e " \e[0;30m \\\e[0;30m \e[0;34m \\\e[0;34m \e[0;32m \\\e[0;32m \e[0;36m \\\e[0;36m \e[0;31m \\\e[0;31m \e[0;35m \\\e[0;35m \e[0;35m \\\e[0;35m \e[0;37m \\\e[0;37m \e[0m" | |
| green='\e[0;32m' # '\e[1;32m' is too bright for white bg. |
vmirly
/ genSfj.awk
Created
October 14, 2013 15:05
Generate scaling factors for each atom of a PDB based on atom type
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| awk '{ | |
| printf "%s\n", substr($3,1,1) | |
| }' amber/heat7.chm.pdb | awk '{ | |
| if ($1=="H") {print "Sfj(",NR,")=0.85"} | |
| else if ($1 == "C") {print "Sfj(",NR,")=0.72"} | |
| else if($1 == "N") {print "Sfj(",NR,")=0.79"} | |
| else if($1 == "O"){print "Sfj(",NR,")=0.85"} | |
| else if($1=="P"){print "Sfj(",NR,")=0.86"} | |
| else if($1=="S"){print "Sfj(",NR,")=0.96"} | |
| }' |
vmirly
/ trainsize.awk
Created
October 12, 2013 18:23
AWK: generate random sample for training and testing
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| awk 'BEGIN {srand()} !/^$/ {printf "%s %f\n",$0, rand()}' merged.arff | sort -n -k2 | | |
| awk '{ | |
| if(NR<=10) {printf "%s\n", $1 >> "t01.csv"} | |
| if(NR<=20) {printf "%s\n", $1 >> "t02.csv"} | |
| if(NR<=40) {printf "%s\n", $1 >> "t03.csv"} | |
| if(NR<=80) {printf "%s\n", $1 >> "t04.csv"} | |
| if(NR<=160) {printf "%s\n", $1 >> "t05.csv"} | |
| if(NR<=320) {printf "%s\n", $1 >> "t06.csv"} | |
| if(NR>320) {printf "%s\n", $1 >> "test.csv"} |
vmirly
/ analyze_memtknss.R
Last active
December 25, 2015 02:29
R read files from a directory and plot them
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| # this R code, will read all the result files found in the specified directory, | |
| # and plot the membrane thickness as a function of time | |
| f.list <- list.files("run_05_rad8t6_den0.2/", pattern="res.tknss.*", full.names=T) | |
| d.list <- lapply(f.list, read.table) | |
| d <- do.call(rbind, d.list) | |
| d$V1=as.numeric(rownames(d))/500 |
vmirly
/ conv_water.awk
Created
October 7, 2013 22:24
AWK: randomly change 10% of water residues from TIP3 to TIPT
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| awk ' | |
| function prpdb(anum, aname, rnum, x,y,z) { | |
| if(rnum<1000) { | |
| printf "ATOM %5d %-3s TIPT0%4d %8.3f%8.3f%8.3f 1.00 0.00 WT00\n",anum, aname, rnum, x, y, z | |
| }else{ | |
| printf "ATOM %5d %-3s TIPT0%5d %8.3f%8.3f%8.3f 1.00 0.00 WT00\n",anum, aname, rnum, x, y, z | |
| } | |
| } | |
| BEGIN { srand() } |