fixed critical bug, scale_reads - no value in / divided by …

[PfaffS]

10 / 11 data set died with the message

Reading seed kmers
Reading total kmers
Plotting seed and total kmers
Use of uninitialized value $seqwithtlen in division (/) at /opt/chloroExtractor/bin/scale_reads.pl line 392, <R> line 10.
Use of uninitialized value $tlen_sum in division (/) at /opt/chloroExtractor/bin/scale_reads.pl line 392, <R> line 10.
Illegal division by zero at /opt/chloroExtractor/bin/scale_reads.pl line 392, <R> line 10.

Here the fix for it, the var was not initialized and when the insert size can't calculated it would die to this error.

Tested with 3 sets ( Demo set - allready worked, still works. And 2 sets where it died, now it finds several contigs but none complete chloroplast)

[coveralls]

Coverage decreased (-0.09%) to 72.3% when pulling ca4f2dbee11a00bed13baeb6b28632bfdc221792 on fix_scr_tlen_spfaff into 3be770cd84efac56606339e8aa24de8d1a75a627 on master.

[coveralls]

Coverage decreased (-0.09%) to 72.3% when pulling ca4f2dbee11a00bed13baeb6b28632bfdc221792 on fix_scr_tlen_spfaff into 3be770cd84efac56606339e8aa24de8d1a75a627 on master.

[greatfireball]

Two little comments:

• [x] can you open an issue for the bug
• [x] delete the line number in the subject line

Thanks!

[greatfireball]

The fix is approved

[greatfireball]

Thanks for your fix and the requested modifications. This fix addresses #95

Can you provide some short reads to write a test for that bug?