Results for "Command lines"
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Install ImageMagick from Unix Source
...ck the distribution with this command: tar xvzf ImageMagick.tar.gz...ng for grep that handles long lines and -e... /bin/grepchecking for...line 9486: AX_COMPILER_FLAGS: command not foundchecking CFLAGS for...hecking the maximum length of command line arguments... 1572864chec...2147 days ago
- Download this https://github.com/trinityrnaseq/trinityrnaseq/releases/tag/T...ed config.status: executing depfiles commands make[1]: Entering directory...result [-Wunused-result] system(command.c_str());...ed config.status: executing depfiles comma...
2134 days ago
Converting a VCF into a FASTA given some reference !
Samtools/BCFtools (Heng Li) provides a Perl script vcfutils.pl which does this, the function vcf2fq (lines 469-528) This script has bee...2117 days ago
Setting python version as default on Linux
If you have a later version than 2.6 you'll need to set 2.6 as the default...ll next need to execute the following commands: sudo apt-get insta...rnatives --config python This last command will allow you to choose whic...et an error message if you've run the comma...2071 days ago
CANU genome assembly parameters !
Choose the appropriate parameters to run Canu and run it. The assembly will take about a...oduces usually high quality assembly, example of a command that was used for testing can...y the assembler, or calculated using standard UNIX comma...1946 days ago
- ...quo;s like flex/lex, from the command-line, perfect for text-proces...u can assign FS either on the command line (-F C) or in your BEGIN...Blocks consisting of multiple lines use braces while (a < 1...rint assoc[key]; # The command line is in a special array ca...
1836 days ago
List of perl special symbols !
There are some variables which have a predefined and special meaning in Perl. They are the variables...last process $AGRV – name of current file @ARGV – command line arguments $ARGV – special file handle for comma...1560 days ago
Perl one-liner for beginners !
I often use the following arguments to perl: -e Makes th...our line to be called in a loop. Allows you to take lines from the diamond operator (or...; justSecondColumn.txt One-Liner: Sort lines by their length perl -e&nb...1382 days ago
Protocol for De novo Genome Assembly using Illumina Reads
In this protocol, we address and describe the de novo assembly method for small to mediu...ormaticsonline.com/snippets/view/42542/trimmomatic-command Genome Assembly:The object o...ms/research/projects/annotation-service/ Frequent comma...1205 days ago
Run bash script in Perl program !
BioPerl is a compilation of Perl modules that can be used to build...to execute certain Unix/shell commands in Perl script, so it's hard...for the execution of external commands (described as follows), whic...first, returns false when the command is not found, but never retur...638 days ago
