tmjdone的专栏

转载 undefined macro: AM_CONFIG_HEADER solution

autoconf error: possibly undefined macro: AM_CONFIG_HEADERrun following command:aclocal ; autoheader; automake ; autoconf

原创 emacs + selinux

add following line to .emacs(setq backup-by-copying t)

转载 windows open command here

http://code.kliu.org/cmdopen/

转载 c++ read gzip

aoeu#include #include #include #include #include #include #include using namespace std;using namespace boost::iostreams;int main(int argc,char* argv[]){ for(int i=1;i<argc;i++){ pri

原创 drupal useful addition module

drop down list: superfishiframe auto height: insertframe

原创 windows useful tools

open command here: http://code.kliu.org/cmdopen/

原创 jquery related

http://www.elated.com/articles/drag-and-drop-with-jquery-your-essential-guide/

原创 fedora torque pbs install

1. install torque-server, torque-mom, and torque-scheduler2. see /usr/share/doc/torque-X.X.X/README & run torque.setup3. service pbs_server startif something wrong with hostname etc, change

原创 html javascript client tools

jqueryDownloadify (client side file generate)https://github.com/dcneiner/Downloadify/downloadshttp://davidwalsh.name/downloadify

转载 fedora postgresql install & usage

source: http://wenda.tianya.cn/wenda/thread?tid=0ac2a18936c98472quick reference:http://www.cleibsonalmeida.blog.br/website/downloads/resumo_postgresql.pdfFedora下PostgreSQL的安装和使用指南l

原创 selinux

semanage fcontext -a -t httpd_sys_content_t file[restorecon -v file

转载 linux distro timeline

原创 svg simple example

原创 Open Grid Scheduler

#$ -S /bin/sh#$ -e JobName.err.$JOB_ID#$ -o JobName.out.$JOB_ID#$ -l vf=1G#$ -l hostname=node3#$ -m beas#$ -M xxx@xxx.xxx#$ -cwduname -n

原创 question and answers about population genetics (for personal use)

incomplete lineage sorting:    中性位点还没完全区分开？

原创 simple model fitting using R

x=c(0,1,2,3,4)y=c(1,2,3,4,5)r=nls(y ~ 1/(1+4*x*p),start=list(p=0))summary(r)xt=seq(1,1000,0.1)yt=1/(1+4*xt*0.02860)postscript(file="/path/to/directory/test.ps",width=7,height=7)or svg(file="/

转载 ld regression

source: http://www.r-bloggers.com/estimate-decay-of-linkage-disequilibrium-with-distance/It is well known that linkage disequilibrium (LD) decays with distance. Several functions have been

转载 画图软件

visit        https://wci.llnl.gov/codes/visit/executables.html

原创 perl profile

old:     perl -d:DProf test.pldprofppdprofpp -Tnew:tools: http://search.cpan.org/dist/Devel-NYTProf/cpan -i Devel::NYTProfperl -dNYTProf xxx.plnytprofhtml

转载 植物拉丁名

原文：http://dasai.dili360.com/hyxs/news.php?news_id=13植物拉丁学名的书写（基础部分）     植物的“学名”，是指以拉丁文书写的国际通用名称，其余各种名称，都是俗名、地方名或者土名，无论是以英文、俄文、中文、日文或其他形式出现。例如牵牛花，有些人可能认为“喇叭花”是俗名，而“牵牛花”是学名，其实，无论是牵牛花、喇

转载 原型设计

网页：axure

原创 dmtcp simple usage (checkpointing)

download: http://dmtcp.sourceforge.net/tar zxf xxxx./configure --prefix=xxxmake make installedit .bashrc: add two lines:export PATH=xxx/bin:$PATHexport JALIB_UTILITY_DIR=xxx/bin

原创 R tests

R --slave --vanilla -e 'a=fisher.test(matrix(c(803,33811,524,50936),nr=2),alternative="two.sided")$p.value;b=p.adjust(a,method="bonferroni",3660);a;b;'

原创 bioinformatics programing, server related, one page reference

ssh: putty filezillaeditor: emacsemacs:   quit: ctrl + x, ctrl + c save: ctrl+x, ctrl+sselect all: ctrl+x, ctrl+hdelete region: ctrl+x, r, dlinux:pwd, cd, mkdir, rmdir, rm, ls, tree

原创 names

paralogon: duplicated genomic region autopolyploidization:  WGD due to doubling of a single genome allopolyploidization: WGD caused by merging two divergent parental genomesneofunctionalization:

原创 cut from other papers

1.  Positive selection for increased dosage has been suggested to explain large tandem arrays of rRNA and histone genes (Hurles2004 ) and is observed experimentallyin bacteria to cope with nutrient

原创 bioinformatics perl useful

BLASTuse Bio::SearchIO;my $searchio=Bio::SearchIO->new(-file=>$file_blast,-format=>'blast');while( my $result = $searchio->next_result ) { my $qid = $result->query_name(); my $qlen= $result-

转载 mac hints & tips

http://bioinfolab.unl.edu/emlab/mac.htmlMac OS X Hints & Tips MacOS X Bioinformatics & Molecular Evolution tools MacOS X softwareClustalX2

转载 4DTV

4DTV stands for four-fold synonymous (degenerative) third-codon transversion. It represents a transversion in the third nucleotide position within four codons that does not result in a change in cor

原创 fedora server command list

systemctl [status|start|stop|restart|enable] [httpd|vsftpd].serveceiptables -I INPUT -s xxx.xxx.xxx.xxx -j ACCEPTservice iptables save

原创 mac fink usage

installation:lion: http://www.finkproject.org/download/srcdist.phpconfiguration:/sw/etc/fink.confupdate:fink selfupdate-rsync or fink selfupdatefink index -f

原创 mac lion 常用软件

iterm2 UnarchiverTinkerTool

原创 useful fonts

droid sans (mono):http://cosmix.org/software/

转载 mac os dsdt edit

software needed:Patcher02Beta5evereststep:1. open everest, right click bottom (the  blank area on the left of the "Copyright" ) of everest window , choose acpi tool. save dsdt to a file (e.g

原创 bioinformatics software

identifing enriched Gene Ontology terms :Ontologizer (Nucleic Acids Research, 2010): http://sourceforge.net/projects/ontologizer/

原创 搭建本地inter pro scan

source: ftp://ftp.ebi.ac.uk/pub/databases/interpro/iprscan/Installing_InterProScan.txtDownload the following files from ftp://ftp.ebi.ac.uk/pub/databases/interpro/iprscan : * RELEASE/latest/

原创 搭建本地blast2go

1. 从http://www.blast2go.com/b2glaunch/resources  下载相应资源(http://www.blast2go.com/data/blast2go/b2g4pipe_v2.5.ziphttp://www.blast2go.com/data/blast2go/local_b2g_db_tutorial_0809.zip)1.5 (可选,依据

转载 mac lion tips

0.  剪切功能:   复制文件  command+c     粘贴时 使用command+option+v       or  win+alt+v1. 长宽都最大化:   shift + 最大化按钮2. launchpad 动态模糊:  在 launchpad里 Command-M (打开/关闭 )   切换不同页面时可以看到效果3. 在Preview 里 按 ~ (键盘左上角,

转载 mac 系统相关常用网站 (驱动)

http://forum.voodooprojects.org/chameleon  启动 引导voodooHDA 声卡ps2...  键盘鼠标battery 电池

转载 install snow leopard on thinkpad x201

from:   http://www.insanelymac.com/forum/lofiversion/index.php/t219737.htmlUPDATE:I managed to install Snow Leopard on my Lenovo Think