Chris Smowton smowton

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  • @smowton 6369cb6
    Clarify build instructions
smowton commented on issue samtools/hts-specs#5
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True enough, hence the big scary warning in sort's man page. This doesn't mean we should introduce (or conceal) extra ways to confuse ourselves, ho…

smowton commented on issue samtools/hts-specs#5
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My particular surprises arose from (a) users attempting comm(1) style comparison between a Samtools-sorted and a Picard-sorted dataset, and (b) try…

smowton commented on issue samtools/hts-specs#5
@smowton

Redirected from the above, +1 to using plain old string ordering everywhere if at all possible. This is complicated a little by Samtools having mad…

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Samtools sort -n is not a lexical sort!
smowton commented on issue samtools/samtools#398
@smowton

Aha, thanks. I'll close this and comment on #5.

smowton commented on issue samtools/samtools#398
@smowton

Finished tracing the related bugs today: the remaining ones were due to samtools sort -n producing a different sort order to Picard / htsjdk with S…

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  • @smowton 6adf3e0
    Make bamcmp use the same screwy mixed ordering as 'samtools sort -n'
smowton commented on issue samtools/samtools#398
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(and/or export strnum_cmp from htslib, so the ordering you're using can be duplicated without copy-pasting the code)

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Samtools sort -n is not a lexical sort!
smowton pushed to master at smowton/llpe
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  • @smowton d8255d8
    Remove some stray LLVM-3.2 includes.
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Tolerate (ignore) reads with no Match operators in their CIGAR string
1 commit with 15 additions and 1 deletion
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  • @smowton e653d74
    Reject reads with no Match entries in their CIGAR string.
smowton pushed to master at smowton/llpe
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  • @smowton 264c548
    Fix silly typo introduced in renaming
smowton pushed to master at smowton/llpe
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  • @smowton 97cfd4a
    Adjust makelists to account for renamed files; fix stray reference to…
  • @smowton ad1729c
    Add more comments and adjust function names to be more informative
  • 2 more commits »
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smowton commented on pull request igraph/igraph#826
@smowton

Would you prefer me to amend this branch to just replace the implementation btw?

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smowton commented on pull request igraph/igraph#826
@smowton

I only kept the old version on the suspicion that it's probably faster for a very small number of iterations against a big graph, and to ease compa…

smowton opened pull request igraph/igraph#826
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Add support for a faster adjacency-list implementation of rewiring.
1 commit with 138 additions and 25 deletions
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  • @smowton 138cfb8
    Add support for a faster adjacency-list implementation of rewiring.
smowton pushed to master at smowton/llpe
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  • @smowton 22e1fcc
    Split further examples into different pages
smowton pushed to master at smowton/llpe
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@smowton
  • @smowton dd1f663
    Add example of conditional specialisation
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smowton merged pull request smowton/llpe#1
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build.md: Fix broken links to the tutorial
1 commit with 2 additions and 2 deletions