Bismark report for: /gscratch/scrubbed/samwhite/outputs/20200305_methcompare_fastp_trimming/Meth8_R1_001.fastq.gz and /gscratch/scrubbed/samwhite/outputs/20200305_methcompare_fastp_trimming/Meth8_R2_001.fastq.gz (version: v0.21.0)
Bismark was run with Bowtie 2 against the bisulfite genome of /gscratch/srlab/sr320/data/froger/Pact_Genome/ with the specified options: -q --score-min L,0,-0.2 -p 4 --reorder --ignore-quals --no-mixed --no-discordant --dovetail --maxins 500
Option '--non_directional' specified: alignments to all strands were being performed (OT, OB, CTOT, CTOB)

Final Alignment report
======================
Sequence pairs analysed in total:	0
Number of paired-end alignments with a unique best hit:	0
Mapping efficiency:	0% 
Sequence pairs with no alignments under any condition:	0
Sequence pairs did not map uniquely:	0
Sequence pairs which were discarded because genomic sequence could not be extracted:	0

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	0	((converted) top strand)
GA/CT/CT:	0	(complementary to (converted) top strand)
GA/CT/GA:	0	(complementary to (converted) bottom strand)
CT/GA/GA:	0	((converted) bottom strand)

Final Cytosine Methylation Report
=================================
Total number of C's analysed:	0

Total methylated C's in CpG context:	0
Total methylated C's in CHG context:	0
Total methylated C's in CHH context:	0
Total methylated C's in Unknown context:	0

Total unmethylated C's in CpG context:	0
Total unmethylated C's in CHG context:	0
Total unmethylated C's in CHH context:	0
Total unmethylated C's in Unknown context:	0

Can't determine percentage of methylated Cs in CpG context if value was 0
Can't determine percentage of methylated Cs in CHG context if value was 0
Can't determine percentage of methylated Cs in CHH context if value was 0
Can't determine percentage of methylated Cs in unknown context (CN or CHN) if value was 0


Bismark completed in 0d 0h 1m 22s