[Bioperl-l] git help

Scott Cain scott at scottcain.net
Thu Mar 31 19:13:06 EDT 2011

Hi all,

I just want to know if it is safe for me to commit.  Here is what git
said to me:

scott-cains-macbook-pro:bioperl-live cain$ git commit
# On branch master
# Your branch is behind 'origin/master' by 47 commits, and can be
# Changed but not updated:
#   (use "git add <file>..." to update what will be committed)
#   (use "git checkout -- <file>..." to discard changes in working directory)
#	modified:   Bio/DB/GFF.pm
#	modified:   Bio/FeatureIO/gff.pm
#	modified:   scripts/Bio-DB-GFF/bulk_load_gff.PLS
#	modified:   scripts/Bio-DB-GFF/fast_load_gff.PLS
#	modified:   t/SeqFeature/FeatureIO.t
#	modified:   t/data/knownGene.gff3
# Untracked files:
#   (use "git add <file>..." to include in what will be committed)
#	scripts/Bio-DB-GFF/genbank2gff3.diff
no changes added to commit (use "git add" and/or "git commit -a")

so should I do a git commit -a?

Also, when I try a git pull, this is what it tells me:

scott-cains-macbook-pro:bioperl-live cain$ git pull
Updating 1c2cf24..d5de022
error: Your local changes to 'Bio/FeatureIO/gff.pm' would be
overwritten by merge.  Aborting.
Please, commit your changes or stash them before you can merge.


Scott Cain, Ph. D.                                   scott at scottcain dot net
GMOD Coordinator (http://gmod.org/)                     216-392-3087
Ontario Institute for Cancer Research

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