new devel version

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/synapter@87628 bc3139a8-67e5-0310-9ffc-ced21a209358
Merge pull request #51 from sgibb/ppm

change default value of grid.ppm.from to 2 (was 5 before)

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/synapter@87629 bc3139a8-67e5-0310-9ffc-ced21a209358
change separator in GridDetails' names to :

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/synapter@87630 bc3139a8-67e5-0310-9ffc-ced21a209358
test for corresponding Pep3D file; closes #42

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/synapter@87631 bc3139a8-67e5-0310-9ffc-ced21a209358
Merge remote-tracking branch 'upstream/master'

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/synapter@87632 bc3139a8-67e5-0310-9ffc-ced21a209358
realeasing

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/synapter@87633 bc3139a8-67e5-0310-9ffc-ced21a209358
Merge branch 'master' into local-hedgehog

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/synapter@87849 bc3139a8-67e5-0310-9ffc-ced21a209358
First version bump prior to creating 2.14 branch.


git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/synapter@88838 bc3139a8-67e5-0310-9ffc-ced21a209358
Second version bump after creating 2.14 release branch.


git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/synapter@88840 bc3139a8-67e5-0310-9ffc-ced21a209358
new devel
add updateSynapterObject function
Merge remote-tracking branch 'upstream/master' into fragmentmatching
remove useless test cases
add loadSpectra and loadFragments