10-13-2011
Hi tyler,
I used your instructions as follows:
C:\Perl>perl -F"\t" -lane 'BEGIN {@hdr = qw(chromo pos refalleles.SampleA refAllele.SampleA refCount.SampleA refFreq.SampleA altAllele.SampleA altCount.SampleA altFreq.SampleA alleles.SampleB refAllele.SampleB refCount.SampleB refFreq.SampleB altAllele.SampleB altCount.SampleB altFreq.SampleB alleles.SampleC refAllele.SampleC refCount.SampleC refFreq.SampleC altAllele.SampleC altCount.SampleC altFreq.SampleC alleles.SampleD refAllele.SampleD refCount.SampleD refFreq.SampleD altAllele.SampleD altCount.SampleD altFreq.SampleD)} $x{join"\t",@F[0..2]}.="\t".join"\t",@F[3..9]; { print join " ", @hdr; foreach $k (sort keys %x) {print "$k\t$x{$k}" if $k !~ /chromo/}}' samplea sampleb samplec sampled
But I get the following error message:
Can't find string terminator "'" anywhere before EOF at -e line 1.
C:\Perl>
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LEARN ABOUT DEBIAN
git-merge-base
GIT-MERGE-BASE(1) Git Manual GIT-MERGE-BASE(1)
NAME
git-merge-base - Find as good common ancestors as possible for a merge
SYNOPSIS
git merge-base [-a|--all] <commit> <commit>...
git merge-base [-a|--all] --octopus <commit>...
git merge-base --independent <commit>...
DESCRIPTION
git merge-base finds best common ancestor(s) between two commits to use in a three-way merge. One common ancestor is better than another
common ancestor if the latter is an ancestor of the former. A common ancestor that does not have any better common ancestor is a best
common ancestor, i.e. a merge base. Note that there can be more than one merge base for a pair of commits.
OPERATION MODE
As the most common special case, specifying only two commits on the command line means computing the merge base between the given two
commits.
More generally, among the two commits to compute the merge base from, one is specified by the first commit argument on the command line;
the other commit is a (possibly hypothetical) commit that is a merge across all the remaining commits on the command line.
As a consequence, the merge base is not necessarily contained in each of the commit arguments if more than two commits are specified. This
is different from git-show-branch(1) when used with the --merge-base option.
--octopus
Compute the best common ancestors of all supplied commits, in preparation for an n-way merge. This mimics the behavior of git
show-branch --merge-base.
--independent
Instead of printing merge bases, print a minimal subset of the supplied commits with the same ancestors. In other words, among the
commits given, list those which cannot be reached from any other. This mimics the behavior of git show-branch --independent.
OPTIONS
-a, --all
Output all merge bases for the commits, instead of just one.
DISCUSSION
Given two commits A and B, git merge-base A B will output a commit which is reachable from both A and B through the parent relationship.
For example, with this topology:
o---o---o---B
/
---o---1---o---o---o---A
the merge base between A and B is 1.
Given three commits A, B and C, git merge-base A B C will compute the merge base between A and a hypothetical commit M, which is a merge
between B and C. For example, with this topology:
o---o---o---o---C
/
/ o---o---o---B
/ /
---2---1---o---o---o---A
the result of git merge-base A B C is 1. This is because the equivalent topology with a merge commit M between B and C is:
o---o---o---o---o
/
/ o---o---o---o---M
/ /
---2---1---o---o---o---A
and the result of git merge-base A M is 1. Commit 2 is also a common ancestor between A and M, but 1 is a better common ancestor, because 2
is an ancestor of 1. Hence, 2 is not a merge base.
The result of git merge-base --octopus A B C is 2, because 2 is the best common ancestor of all commits.
When the history involves criss-cross merges, there can be more than one best common ancestor for two commits. For example, with this
topology:
---1---o---A
/
X
/
---2---o---o---B
both 1 and 2 are merge-bases of A and B. Neither one is better than the other (both are best merge bases). When the --all option is not
given, it is unspecified which best one is output.
SEE ALSO
git-rev-list(1), git-show-branch(1), git-merge(1)
GIT
Part of the git(1) suite
Git 1.7.10.4 11/24/2012 GIT-MERGE-BASE(1)