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• Technical and Specialized Skills
  see: [[:Category:Linux Command Line Tools]] and [[:Category:Scripting languages]] for detailed listing. * Remote login, file transfer, etc.: [[Secure Shell|SSH]] (+scp), [[Rsync (command)|rsync]], FTP, [[dsh]] ([https://www.netfort.gr.jp/~dancer/software/dsh.htm
  6 KB (773 words) - 11:35, 5 February 2020
• Bash
  '''Bash''' is a [[Linux]] command shell written for the GNU project. Its name is an acronym for '''''B'''ourn A shell builtin is a command or a function, called from a shell, that is executed directly in the shell
  34 KB (5,354 words) - 19:04, 9 May 2023
• Curriculum Vitae
  ...t, [[Cloud|Cloud Engineer]], [[DevOps|DevOps Engineer]], [[:Category:Linux Command Line Tools|Linux Systems Administrator]], and [[:Category:Academia|scientif ...nt (CRM) website using Django (+Python, MySQL) with extended web services, command line interface, mobile apps, etc.
  39 KB (5,009 words) - 19:43, 14 January 2023
• Vi
  ...editor computer program run from the [[:Category:Linux Command Line Tools|command line]]. This article will mainly discuss techniques for '''vim''' ('''vi''' <tr class="title"><td colspan="2">'''Command mode'''</td></tr>
  14 KB (2,396 words) - 22:38, 21 June 2023
• Bayesian Phylogenetic Analysis
  ...ain a full probability distribution over all possible parameter values. To find this so-called '''[[Posterior probability|posterior probability distributio ...iven that parameter value. (This is the measure we have previously used to find the '''[[Maximum likelihood|maximum likelihood]]''' estimate.) If the prior
  28 KB (4,371 words) - 03:28, 14 April 2008
• ClustalW
  ...set of sequences where all of them are VERY similar. In this case, you can find very high support for some groupings which will disappear if you run the an === Summary of the command line usage (very brief) ===
  16 KB (2,365 words) - 20:40, 6 November 2008
• Blastall
  ...e [ftp://ftp.ncbi.nih.gov/blast/db/ BLAST database FTP directory] you will find the downloadable BLAST database files. For your first search, it is recomm To format the <code>ecoli.nt</code> database run the following from the command line:
  8 KB (1,298 words) - 00:45, 17 August 2007
• Comm (command)
  ...umns for left and right files. This functionally is similar to <tt>[[Diff (command)|diff]]</tt>. To find what lines are common in both of these files, type the following:
  1 KB (250 words) - 21:58, 25 May 2006
• Agrep
  ...a "fuzzy string searching" program or [[:Category:Linux Command Line Tools|command line tool]] for use with the [[Linux]] operating system. *:for example, "<code>agrep -2 homogenos foo</code>" will find homogeneous as well as any other word that can be obtained from homogenos w
  13 KB (1,944 words) - 06:33, 20 April 2012
• Wget
  ...ownloading in background, so that you can disconnect the terminal once the command is issued. while [ $(find .wget-list -size +0) ]; do
  5 KB (719 words) - 07:18, 13 September 2021
• Rsync
  '''rsync''' is a [[:Category:Linux Command Line Tools|command line tool]] which synchronizes files and directories from one location to a ...>) with a backup directory/disk (e.g. <code>/backup</code>). The following command will accomplish this:
  13 KB (2,005 words) - 21:34, 11 July 2015
• Sudosh
  ...dosh</tt> allows the execution of a root or user shell with logging. Every command the user types within the root shell is logged as well as the output. ...code> but if you use a shell such as [[C shell|csh]] that does not support command-line logging you are out of luck.<br>
  1 KB (254 words) - 02:03, 26 April 2007
• Summary of "Frankenstein" by Mary Godwin Shelly
  ...so many dimensions: The surface, inside, throughout, and at a distance. I find it difficult that a girl of 19 could have written a story with such depth; ...helley's ''Frankenstein'' will likely be different than that of another. I find no unquestionable meaning revealed by the text itself. Instead of defining
  13 KB (2,023 words) - 20:41, 5 January 2014
• Miscellaneous commands
  ...riva]]). Most of these will be simple [[:Category:Linux Command Line Tools|command line tools]]. Eventually, many of these will have their own article. For no *Find YouTube videos with your "word" in the video ID:
  20 KB (3,106 words) - 23:38, 10 September 2021
• Fdupes
  ...'' is a ([[:Category:Linux Command Line Tools|command line tool]]) used to find duplicate files in a given set of directories in [[linux]]. ...ames and locations; if the ''contents'' of the file are identical, it will find these files to be identical. It was written by Adrian Lopez.
  3 KB (442 words) - 01:43, 26 April 2007
• Dr. Rasmus Nielsen Laboratory/Notes
  * '''Find probability of each group''' ...to do that at all taxonomic levels. You use the <tt>sumt burnin=1000</tt> command to get output that specifies all the most supported partitions. For each ta
  3 KB (524 words) - 00:48, 26 July 2006
• Dr. Carlos J. Camacho Laboratory
  ...ands of lines of code, if the system should crash it would be difficult to find out where the problem was if I didn't maintain extensive log files. I set t I would say that working with the command line interface (CLI) and scripting languages are my main skills and strengt
  7 KB (1,041 words) - 03:37, 27 December 2012
• Essay On: Against the Gods
  ...eas of brilliant scientists and mathematicians, our society would not have command of probability theory and other instruments of risk management that lie at ...ight questions. This doesn't mean that the answers are going to be easy to find, but I can not think of any questions we should be asking that we, society,
  11 KB (1,849 words) - 20:47, 5 January 2014
• Regular expression
  ...set of utilities (including the editor [[Sed|sed]] and the filter [[Grep (command)|grep]]) provided by [[Linux|Unix]] distributions were the first to popular http|ftp|gopher </font># make sure we find a resource type<font color="blue">
  13 KB (2,034 words) - 21:46, 9 March 2009
• Sed/scripts
  sed "s/$/`echo -e \\\r`/" # command line under ksh sed 's/$'"/`echo \\\r`/" # command line under bash
  30 KB (4,929 words) - 22:47, 21 August 2019
• Redirection (Linux)
  ...our screen. Standard output (STDOUT) captures the normal output of a given command. Standard error (STDERR) captures most failures and error conditions. ...mented by placing certain characters (or tokens) between [[:Category:Linux Command Line Tools|commands]]. Typically, the syntax of these characters is as foll
  12 KB (1,905 words) - 20:29, 22 September 2020
• Curl/manual
  '''The [[Curl (command)|cURL]] Manual''' by the Haxx Team. To post to this, you enter a curl command line like:
  29 KB (4,993 words) - 01:53, 26 April 2007
• Expect (command)
  ...mands added: '''send''', and '''expect'''. These allow a script to control command-line tools originally designed to interact only with a human. For example, # Send the pre-built command, and then wait for another shell prompt.
  7 KB (1,064 words) - 03:05, 13 April 2008
• Units (command)
  '''units''' is a [[:Category:Linux Command Line Tools|command line]] unit conversion program. ...can use the program interactively with prompts, or you can use it from the command line.
  4 KB (615 words) - 22:12, 16 April 2007
• Urpmi
  ...[[Mandriva Linux]] package management [[:Category:Linux Command Line Tools|command line tool]] for installing, removing, updating and querying software packag urpmf <file> # Find package that contains a file
  3 KB (499 words) - 05:50, 17 July 2009
• Linux directory structure
  |Essential command [[executable|'''bin'''aries]] for all users (e.g., [[cat (Unix)|cat]], [[ls find /var/log/ -name "*.log" -mtime +1 -exec bzip2 -z '{}' \;
  7 KB (974 words) - 20:12, 19 April 2022
• Make
  ; <code>$(findstring find,text)</code> : Locate find in text ; <code>$(wildcard pattern...)</code> : Find file names matching a shell file name pattern (not a '%' pattern)
  6 KB (1,015 words) - 03:38, 1 October 2009
• Expr
  '''expr''' is a [[:Category:Linux Command Line Tools|command line]] utility which evaluates an expression and outputs the corresponding ...n]]s. Most of the challenge posed in writing expressions is preventing the command line shell from acting on characters intended for ''expr'' to process.
  3 KB (443 words) - 01:59, 26 April 2007
• Findutils
  '''The GNU Find Utilities''' (or '''Findutils''') are the basic directory searching utiliti * <tt>find</tt> - search for files in a directory hierarchy
  10 KB (1,695 words) - 23:28, 21 May 2015
• Bioinformatics resource list
  ...t software, libraries, web servers, general data, and any other resource I find useful. * preferably CLI-friendly (i.e. able to run entirely from the command-line); and
  13 KB (1,598 words) - 06:08, 20 May 2008
• ISO Images
  ...rything will be done from the CLI (or [[:Category:Linux Command Line Tools|command line]]). ...holds the files you place in your ISO image. Then use the <tt>mkisofs</tt> command.
  11 KB (1,842 words) - 14:44, 14 July 2014
• Firefox
  ...>/word</code> it will highlight the word and press <code>Ctrl+G</code> to "Find Again" that word again. * Issue the following command:
  7 KB (1,193 words) - 07:15, 30 April 2010
• Style and Diction
  ...' and '''diction''' are two [[Linux]] [[:Category:Linux Command Line Tools|command-line]] linguistic utilities. They are part of the GNU software suite. #Find the average sentence length (divide the number of words by the number of se
  15 KB (2,157 words) - 08:50, 24 April 2012
• Dbacl
  ...e first is learning mode, where one or more text documents are analysed to find out what make them look the way they do. At the shell prompt, type (without .... We assume there is no cost for classifying correctly. Then the following command implements the optimal Bayesian decision:
  7 KB (1,190 words) - 08:53, 22 February 2007
• Tex2im
  ...t; possible examples: gif, jpg, tif (all formates supported by "[[Convert (command)|convert]]" should work; default: png ...sing with transparency seems not to be possible. Just play around a bit to find the optimal settings.
  5 KB (868 words) - 07:48, 25 December 2008
• Awk/scripts
  For example, a Linux command called <code>hello.awk</code> that prints the string "Hello, world!" may be ...unt words in the input, and print lines, words, and characters (like [[Wc (command)|wc]])):
  18 KB (2,772 words) - 22:57, 26 October 2021
• Linux HDD
  You may want to issue the the following command to grant other users access to the mount point: *Find unallocated free space on a HDD:
  7 KB (1,275 words) - 03:45, 1 December 2015
• Iptables
  ==Basic command options== NOTE: Running the <code>`iptables`</code> command changes the netfilter kernel module rules in memory, but will not persist a
  21 KB (2,869 words) - 21:16, 19 December 2018
• Linux kernel
  ...efined by user. To find out the proper location on your system, issue this command: [[Category:Linux Command Line Tools]]
  6 KB (897 words) - 10:20, 17 November 2014
• RPM Package Manager
  ...erytags". To find out which querytags are available, execute the following command: ...o" in them (i.e., not version, release, arch, etc.), execute the following command
  8 KB (1,064 words) - 22:36, 19 April 2023
• List of GNU packages
  | [[find]], [[locate]], [[xargs]] | useful library for reading command lines
  8 KB (1,101 words) - 05:31, 4 April 2007
• GRUB
  grub> find /boot/grub/stage1 *Find gzipped, 640x480, 14 colour only, xpm images (like the ones [http://schrage
  2 KB (303 words) - 23:30, 30 May 2012
• List of SEALS programs
  ;faand : find the logical intersection between fasta libraries ;faor : find the logical union between fasta libraries
  10 KB (1,464 words) - 06:54, 4 May 2007
• Perl/Scripts
  ;-p : Execute the command for every line of the file. ;-e : Invoke command.
  14 KB (2,259 words) - 06:45, 24 September 2007
• Nmap
  ...oration or security auditing. Many systems and network administrators also find it useful for tasks such as network inventory, managing service upgrade sch *If you find an "unknown" service, look it up:
  6 KB (882 words) - 00:04, 6 June 2021
• Gp
  ...e them in a pipe as any other [[:Category:Linux Command Line Tools|Linux]] command or use them in a cgi script. All programs are written in ANSI C, and are su ...binds in a given sequence. You can either type the sequence directly as a command line argument, like
  7 KB (1,108 words) - 02:04, 13 July 2012
• Apache
  ''Note: To monitor the significance, add '-c' to the uniq command, which will find you a count of the number of each error.''
  3 KB (400 words) - 21:59, 17 May 2015
• BLAST
  ...e BLAST database FTP directory (ftp://ftp.ncbi.nih.gov/blast/db/) you will find the downloadable BLAST database files. For your first search we recommend d To format the <code>ecoli.nt</code> database run the following from the command line:
  15 KB (1,757 words) - 22:12, 9 July 2012
• Awk/tips and tricks
  ...ut only those rows, remove the trailing slash with sed, use awk to build a command line that will tar up the directory, and finally execute the whole shebang ...construct; however, the disadvantage of this is that you can't preview the command sequence quite as easily.
  2 KB (288 words) - 17:25, 9 January 2010
• Tr (coreutils)
  ...de>''' is a [[:Category:Linux Command Line Tools|Linux CLI]] [[coreutils]] command to translate, squeeze, and/or delete characters. *Find doubled occurrences of words in a document. For example, people often write
  11 KB (1,812 words) - 07:26, 1 July 2020

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