millironx/sc2-sequencing
1
0
Fork 0
mirror of https://github.com/MillironX/sc2-sequencing.git synced 2024-12-22 03:08:17 +00:00
Code Issues Releases Packages Activity

Convert a ClearLabs fasta tarball on Linux

Browse source
This commit is contained in:
Thomas A. Christensen II 2021-03-17 21:54:38 -06:00
parent 09c08c9de1
commit 7065e22ab3
Signed by: millironx
GPG key ID: 139C07724802BC5D
1 changed files with 18 additions and 0 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

18
convert-fastas.sh Executable file
View file

@ -0,0 +1,18 @@
#!/bin/bash
# Untars the ClearLabs bulk download and converts it to a single FASTA suitable
# for online sequence analyzers
# Pull in the tarball name
FASTAFILE=${1}
# Determine what the nasty name is
FASTANAME=$(basename -s .fastas.tar "$FASTAFILE")
# Make a new folder to put everything in
mkdir "$FASTANAME"
# Untar the tarball
tar -xf "$FASTAFILE" -C "$FASTANAME"
# Smash all of the FASTAs together into a single file
cat "$FASTANAME"/*.fasta > "$FASTANAME"/"$FASTANAME".fasta