#1 ttrace FASTQ output

[Peter]

The tool ttrace already support FASTA + QUAL output (using PHRED quality scores), so adding Sanger FASTQ output is fairly easy.

I have written a patch to implement this, which changes these three files in Trace Tuner 3.0.6beta:

src/compute_qv/main.c
src/compute_qv/Btk_qv_io.h
src/compute_qv/Btk_qv_io.c

This adds three new command line switches (mimicking existing options for FASTA or QUAL), -f, -fa and -fd

[Peter]

Zipped patch to add FASTQ output to ttrace

[Martin Mokrejs]

For those curious how to apply the diffs:

cd tracetuner_3.0.6beta
mkdir patches
cd patches
wget https://sourceforge.net/p/tracetuner/feature-requests/discuss/thread/b13285df/7b46/attachment/ttracefastq.zip
unzip ttracefastq.zip
cd ..
patch -R ./src/compute_qv/main.c patches/main.diff
patch -R ./src/compute_qv/Btk_qv_io.c patches/Btk_qv_io_c.diff
patch -R ./src/compute_qv/Btk_qv_io.h patches/Btk_qv_io_h.diff