Gert Hulselmans

As far as I can see, you didn't use the resorted VCF file: ```bash sort_vcf_same_as_bam.sh possorted_genome_bam.bam ALL.wgs.shapeit2_integrated_v1a.GRCh38.20181129.sites.vcf > ALL.wgs.shapeit2_integrated_v1a.GRCh38.20181129.sites.sorted_same_as_bam.vcf dsc-pileup --sam possorted_genome_bam.bam --vcf ALL.wgs.shapeit2_integrated_v1a.GRCh38.20181129.sites.sorted_same_as_bam.vcf --out outs_pileup ```

Also your BAM header looks a bit weird. Normally the tags should be in upper case (at least for the standard ones). ```bash samtools view -H ${bam} | sed -e...

Probably you gave the wrong order of arguments.

@ipatop Are you running it with bash v4?

@nich-sugiarto Can you show the full commandline and error message?

Thanks. At https://blog.codinghorror.com/zopfli-optimization-literally-free-bandwidth/ you can find an image that almost not optimized with oxipng (- 28 bytes), while TruePNG does much better (- 7016 bytes). ```bash # Download image. $...

In the mean time I switched from TruePNG to `pngquant` + `zopflipng` for the specific type of images I had (final filesize was very close to `TruePNG` + `zopflipng`. It...

When I tested it, yesterday, I build the latest git version `2f622fc7bd610c3e8a0d2471c5d46c63f32cd626`

@TPS Yes they are. They are very simple PNG images made with weblogo: https://weblogo.threeplusone.com/examples.html#splice Maybe you didn't see it well, oxipng (`oxipng -v -v --strip=all -o max -Z --out /tmp/test.png...

I use the original zopfli. At first I had problems generating the same small file with pngquant + zopflipng (smallest I got was only 6972) as the one I made...