AnnotSV install

[geniusphil]

Ubuntu

Installation package

$ sudo apt-get install tcsh tclsh

Environment variable setting

In bash, you can define it with the following command line

export ANNOTSV=/path_of_AnnotSV_installation/

---

$ cd AnnotSV_2.2

$ sudo make install

Configfile configuration
------------------------
install -d /usr/local/etc/AnnotSV
install -p -m 0755 etc/AnnotSV/configfile  /usr/local/etc/AnnotSV

Executable installation
-----------------------
install -d /usr/local/bin/AnnotSV
install -p -m 0755 bin/AnnotSV/AnnotSV.tcl /usr/local/bin/AnnotSV
tclsh: Command not found.
tclsh: Command not found.

Tcl scripts installation
------------------------
install -d /usr/local/share/tcl/AnnotSV
install -p -m 0644  share/tcl/AnnotSV/AnnotSV-ranking.tcl share/tcl/AnnotSV/AnnotSV-write.tcl share/tcl/AnnotSV/AnnotSV-imh.tcl share/tcl/AnnotSV/AnnotSV-omim.tcl share/tcl/AnnotSV/AnnotSV-help.tcl share/tcl/AnnotSV/AnnotSV-filteredVCF.tcl share/tcl/AnnotSV/AnnotSV-refGene.tcl share/tcl/AnnotSV/AnnotSV-config.tcl share/tcl/AnnotSV/AnnotSV-repeat.tcl share/tcl/AnnotSV/AnnotSV-userBED.tcl share/tcl/AnnotSV/AnnotSV-vcf.tcl share/tcl/AnnotSV/AnnotSV-exac.tcl share/tcl/AnnotSV/AnnotSV-extann.tcl share/tcl/AnnotSV/AnnotSV-gnomad.tcl share/tcl/AnnotSV/AnnotSV-dgv.tcl share/tcl/AnnotSV/AnnotSV-clingen.tcl share/tcl/AnnotSV/AnnotSV-haploinsufficiency.tcl share/tcl/AnnotSV/AnnotSV-tad.tcl share/tcl/AnnotSV/AnnotSV-1000g.tcl share/tcl/AnnotSV/AnnotSV-pathogenic-NR-SV.tcl share/tcl/AnnotSV/AnnotSV-genehancer.tcl share/tcl/AnnotSV/AnnotSV-promoter.tcl share/tcl/AnnotSV/AnnotSV-general.tcl share/tcl/AnnotSV/AnnotSV-ddd.tcl share/tcl/AnnotSV/AnnotSV-gccontent.tcl /usr/local/share/tcl/AnnotSV

Documentations installation
---------------------------
install -d /usr/local/share/doc/AnnotSV
install -p -m 0644  License.txt changeLog.txt commandLineOptions.txt README.AnnotSV_2.2.pdf /usr/local/share/doc/AnnotSV
/bin/cp -r share/doc/AnnotSV/Annotations_Human /usr/local/share/doc/AnnotSV
tclsh: Command not found.

Installation of AnnotSV-2.2:
--------------------------------
DESTDIR=
PREFIX=/usr/local
TCLVERSION=tcl

Done

[geniusphil]

Fixed ANNOTSV typo.