Adds the flowClust package to bioconductor.


git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@30737 bc3139a8-67e5-0310-9ffc-ced21a209358
# Updated the configure script.

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@30897 bc3139a8-67e5-0310-9ffc-ced21a209358
# I have bumped down the required version of GSL from 1.8 to 1.6.

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@30927 bc3139a8-67e5-0310-9ffc-ced21a209358
namespace - quotation marks removed
flowClust.c - comment out R_init_flowClust
setMethods.R - remove default value in the replacement function
all for testing only

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@30947 bc3139a8-67e5-0310-9ffc-ced21a209358
setMethods.R - put back default value in the replacement function

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@30972 bc3139a8-67e5-0310-9ffc-ced21a209358
# I have added a Makevars.win

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@30992 bc3139a8-67e5-0310-9ffc-ced21a209358
minor changes in flowClust.c (esp. up_data_z_weight) and BoxCox.C to increase computational efficiency;
compute output covariance matrix (sigma) in C

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31091 bc3139a8-67e5-0310-9ffc-ced21a209358
# I have bumped the version number to reflect the addition of the Makevars.win

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31110 bc3139a8-67e5-0310-9ffc-ced21a209358
# I have changed the configure script to use (by default) the same BLAS libraries as R. 

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31139 bc3139a8-67e5-0310-9ffc-ced21a209358
modified namespace - import only relevant classes and methods instead of the whole namespace from flowCore

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31147 bc3139a8-67e5-0310-9ffc-ced21a209358
# I have now included a README file for instructions on how to include flowClust under Windows. I have also modified the Makevars.win.

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31157 bc3139a8-67e5-0310-9ffc-ced21a209358
modified namespace - not to import the curv2filter, curv1filter and quadGate classes from flowCore for compatibility with previous versions of flowCore

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31160 bc3139a8-67e5-0310-9ffc-ced21a209358
# I now use gslcblas by default to avoid any problems.

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31180 bc3139a8-67e5-0310-9ffc-ced21a209358
# I have made another minor change in the autoconf file.

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31223 bc3139a8-67e5-0310-9ffc-ced21a209358
# More fixes on the autoconf

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31253 bc3139a8-67e5-0310-9ffc-ced21a209358
# Another minor change

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31262 bc3139a8-67e5-0310-9ffc-ced21a209358
# I have removed the verbose on the number of iterations. I have also updated the Makevars.win, and declared the pointers that previously gave warnings.

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31288 bc3139a8-67e5-0310-9ffc-ced21a209358
Changed unprintable character to '.


git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31401 bc3139a8-67e5-0310-9ffc-ced21a209358
Updating the version number for the BioC 2.2 release.

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31430 bc3139a8-67e5-0310-9ffc-ced21a209358
Updating the version number for the trunk post-BioC 2.2 release.

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust@31432 bc3139a8-67e5-0310-9ffc-ced21a209358