Bash One liners ¶

Export Inkscape SVG files to EPS for PLOS journals¶

-T converts text to outlines so that fonts do not have to be embedded.

for file in *.svg; do inkscape -T -o ${file/svg/eps} $file; done

zcat <FASTQ.GZ> | head -n 100 | sed -n 2~4p

gzip -dc <INPUT.FASTQ.GZ> | \
    awk 'BEGIN {line=3;read=0} ++line==4 {$0="@"read;line=0;read++} 1' |  \
    gzip > <OUTPUT.FASTQ.GZ>

rsync "serine://home/common/Desktop/rasi/Primers from to be cloned"* /home/rasi/desktop/

This looks for primers starting as oAS8 followed by 6, 7, 8, or 9 in the snapgene-exported files.

for file in "Primers from "*; do grep "oAS8[6789]" "$file" > "${file/txt/tsv}"; done

sshfs "serine://home/common/git/snapgene_maps/DNA Files" /home/rasi/mounts/snapgene/

ssh serine
sh /opt/gslbiotech/snapgene/snapgene.sh

for file in */analyze_results.md; do sed -i -r 's/.+(analyze_results_files.+)/![](\1/p' $file; done

You might want to check and delete these periodically.

First navigate to the directory you want to check.
The following command will print out the size and location of the 30 largest files in your current directory and its subdirectories.
```
find . -type f -printf '%s\t%p\n' | sort -nr | head -30
```
Once you have identified these files, delete the useless ones using rm FILE_LOCATION.

This works for files in the current working directory.

for file in `find *.svg -type f -mmin -60`; do newname=${file//svg/png}; inkscape --export-png=$newname --export-dpi=300 $file; echo $newname; done

for folder in processeddata/*; do if [ ! -f "$folder"/gencode.genome.bam ]; then echo $folder; fi; done