This is an automated email from the git hooks/post-receive script. afif-guest pushed a commit to branch master in repository blasr.
commit 9285230161700452a316fc4e7592e24fa1aa1763 Author: Afif Elghraoui <a...@ghraoui.name> Date: Wed Jul 29 22:18:18 2015 -0700 Add 'See Also' sections --- debian/blasr.1 | 9 +++++++++ debian/loadPulses.1 | 9 +++++++++ debian/pls2fasta.1 | 9 +++++++++ debian/samFilter.1 | 9 +++++++++ debian/samtoh5.1 | 9 +++++++++ debian/samtom4.1 | 9 +++++++++ debian/sawriter.1 | 9 +++++++++ debian/sdpMatcher.1 | 9 +++++++++ debian/toAfg.1 | 9 +++++++++ 9 files changed, 81 insertions(+) diff --git a/debian/blasr.1 b/debian/blasr.1 index cd2f279..45693ea 100644 --- a/debian/blasr.1 +++ b/debian/blasr.1 @@ -441,3 +441,12 @@ single molecule sequencing reads using Basic Local Alignment with Successive Refinement (BLASR): Theory and Application, BMC Bioinformatics 2012, 13:238. Please report any bugs to 'https://github.com/PacificBiosciences/blasr/issues'. +.SH SEE ALSO +.BR loadPulses (1) +.BR pls2fasta (1) +.BR samFilter (1) +.BR samtoh5 (1) +.BR samtom4 (1) +.BR sawriter (1) +.BR sdpMatcher (1) +.BR toAfg (1) diff --git a/debian/loadPulses.1 b/debian/loadPulses.1 index 76184a9..be6d5e9 100644 --- a/debian/loadPulses.1 +++ b/debian/loadPulses.1 @@ -70,3 +70,12 @@ bas/bax/pls.h5 file. .IP Set chunk size of raw data cache for reading bas/bax/pls.h5 file. +.SH SEE ALSO +.BR blasr (1) +.BR pls2fasta (1) +.BR samFilter (1) +.BR samtoh5 (1) +.BR samtom4 (1) +.BR sawriter (1) +.BR sdpMatcher (1) +.BR toAfg (1) diff --git a/debian/pls2fasta.1 b/debian/pls2fasta.1 index d74f19b..64ad554 100644 --- a/debian/pls2fasta.1 +++ b/debian/pls2fasta.1 @@ -74,3 +74,12 @@ Otherwise, print the .TP longestsubread. This does not support fastq. +.SH SEE ALSO +.BR blasr (1) +.BR loadPulses (1) +.BR samFilter (1) +.BR samtoh5 (1) +.BR samtom4 (1) +.BR sawriter (1) +.BR sdpMatcher (1) +.BR toAfg (1) diff --git a/debian/samFilter.1 b/debian/samFilter.1 index fdff34e..dc0aab8 100644 --- a/debian/samFilter.1 +++ b/debian/samFilter.1 @@ -128,3 +128,12 @@ When "\-smrtTitle" is specified, the xs tag is ignored, but when it is not specified, the coordinates given by the xs and xe tags are used to define the interval of a read that is aligned. The CIGAR string is relative to this interval. +.SH SEE ALSO +.BR blasr (1) +.BR loadPulses (1) +.BR pls2fasta (1) +.BR samtoh5 (1) +.BR samtom4 (1) +.BR sawriter (1) +.BR sdpMatcher (1) +.BR toAfg (1) diff --git a/debian/samtoh5.1 b/debian/samtoh5.1 index 3ba6034..3c6b0a1 100644 --- a/debian/samtoh5.1 +++ b/debian/samtoh5.1 @@ -54,3 +54,12 @@ When "\-smrtTitle" is specified, the xs tag is ignored, but when it is not specified, the coordinates given by the xs and xe tags are used to define the interval of a read that is aligned. The CIGAR string is relative to this interval. +.SH SEE ALSO +.BR blasr (1) +.BR loadPulses (1) +.BR pls2fasta (1) +.BR samFilter (1) +.BR samtom4 (1) +.BR sawriter (1) +.BR sdpMatcher (1) +.BR toAfg (1) diff --git a/debian/samtom4.1 b/debian/samtom4.1 index 84f8e33..033e2ce 100644 --- a/debian/samtom4.1 +++ b/debian/samtom4.1 @@ -27,3 +27,12 @@ Print M4 header. .IP Use abbreviated reference names obtained from file.sam instead of using full names from reference.fasta. +.SH SEE ALSO +.BR blasr (1) +.BR loadPulses (1) +.BR pls2fasta (1) +.BR samFilter (1) +.BR samtoh5 (1) +.BR sawriter (1) +.BR sdpMatcher (1) +.BR toAfg (1) diff --git a/debian/sawriter.1 b/debian/sawriter.1 index 5d276b6..a546e69 100644 --- a/debian/sawriter.1 +++ b/debian/sawriter.1 @@ -37,3 +37,12 @@ normal larsson. .TP \fB\-welterweight\fR N use a difference cover of size N for building the suffix array. Valid values are 7,32,64,111, and 2281. +.SH SEE ALSO +.BR blasr (1) +.BR loadPulses (1) +.BR pls2fasta (1) +.BR samFilter (1) +.BR samtoh5 (1) +.BR samtom4 (1) +.BR sdpMatcher (1) +.BR toAfg (1) diff --git a/debian/sdpMatcher.1 b/debian/sdpMatcher.1 index ead9ff8..64378df 100644 --- a/debian/sdpMatcher.1 +++ b/debian/sdpMatcher.1 @@ -4,3 +4,12 @@ sdpMatcher \- description of program .SH DESCRIPTION usage: sdpMatcher query target k [\-indelRate delta] [\-showalign] [\-printsw] [\-noRefine] [\-indel i] [ \fB\-local\fR ] [\-match m] [\-sdpIndel i] +.SH SEE ALSO +.BR blasr (1) +.BR loadPulses (1) +.BR pls2fasta (1) +.BR samFilter (1) +.BR samtoh5 (1) +.BR samtom4 (1) +.BR sawriter (1) +.BR toAfg (1) diff --git a/debian/toAfg.1 b/debian/toAfg.1 index 531d5a2..19511ac 100644 --- a/debian/toAfg.1 +++ b/debian/toAfg.1 @@ -12,3 +12,12 @@ usage: toAfg input.filetype output.filetype [\-uniformQV QV] .PP Print reads stored in a file (pls|fasta|fastq) as an afg. +.SH SEE ALSO +.BR blasr (1) +.BR loadPulses (1) +.BR pls2fasta (1) +.BR samFilter (1) +.BR samtoh5 (1) +.BR samtom4 (1) +.BR sawriter (1) +.BR sdpMatcher (1) -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/blasr.git _______________________________________________ debian-med-commit mailing list debian-med-commit@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit