make: suggest --download-make when gnumake is not found.

make: --with-make=0 does not make sense. Removing it

all GNUPackages should receive their make from PETSc
Since PETSc sometimes does not use the default make

moved isBGL() from PETSc libraryOptions to BuildSystem libraries
because it is not in any particular way PETSc specific unline precision, scalartype etc

moved non-PETSc specific package feature to base package

gmake: check version and assume gnumake only if version > 3.80

updated hdf5.py to use standard GNUPackage

MPICH needs different tarballs for certain archtectures or options

GNUPackage should use make.make not plain "make" for compiles

GNUPackage no longer creates download from version etc
GNUPackage no longer adds --with-package for configure for each package dependency since produces many false positives

Merge branch 'maint'

docs: petsc-dev.tar.gz -> petsc-master.tar.gz
http://mcs.anl.gov/petsc/petsc-dev -> http://mcs.anl.gov/petsc/petsc-master
[use http://mcs.anl.gov/petsc-current for docs that are not development relat

docs: petsc-dev.tar.gz -> petsc-master.tar.gz
http://mcs.anl.gov/petsc/petsc-dev -> http://mcs.anl.gov/petsc/petsc-master
[use http://mcs.anl.gov/petsc-current for docs that are not development related]

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Configure: No longer use __init__.py to store the list of packages, read them from the filesystem

ctetgen.py depends on mpi
MPICH is now more careful about exactly what GNU configure options it rejects to prevent possible options

moved OpenMPI install to a seperate file

removed --download-mpich to its own MPICH.py file

updated externalpackages to print message about SUDO password if needed by prefix only once
updated many packages to install under sudo if needed

fixed several external packages to place their configuration file in the proper 'conf' subdirectory
added support for --prefix-sudo-password to avoid interactively needing to provide password
updated

fixed several external packages to place their configuration file in the proper 'conf' subdirectory
added support for --prefix-sudo-password to avoid interactively needing to provide password
updated exodusii.py and fblaslapack.py to use sudo command for install if needed

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Packages used internally by PETSc, for example, sowing, are now NOT installed in the prefix location
Updated several of the BuildSystem externalpackages to use sudo to install in non-user writable pr

Packages used internally by PETSc, for example, sowing, are now NOT installed in the prefix location
Updated several of the BuildSystem externalpackages to use sudo to install in non-user writable prefix location

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For --prefix configurations the external packages are installed directly to the final location
Previously we installed to the PETSC_DIR/PETSC_ARCH location and then copied everything over at the time

For --prefix configurations the external packages are installed directly to the final location
Previously we installed to the PETSC_DIR/PETSC_ARCH location and then copied everything over at the time of the PETSc make install
The reason was so only a single sudo would ever be needed. The drawback was it does not leverage each packages install tools, so, for example,
--download-mpich didn't work correctly with --prefix and also shared libraries did not work correctly with --prefix

If the final location requires root access then that is now requested via sudo for each external packages make install, but if sudo is not needed
it is not called

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Merge branch 'maint'

Added libhdf5hl_fortran.a to library searches when using a Fortran compiler
We already added the non-hl Fortran library

Suggested-by: Glenn Hammond <gehammo@sandia.gov>

Merge branch 'maint'

configure: x is autoenabled so if its not found - configure continues.
However if user specifies --with-x=1 and its not found - give an error message.

Merge branch 'maint'

* 'maint':
changes: add in info regarding bin/matlab -> share/petsc/matlab
replacing MatConvert() by MatSetValues() to illustrate how to convert petsc dense format to elemen

Merge branch 'maint'

* 'maint':
changes: add in info regarding bin/matlab -> share/petsc/matlab
replacing MatConvert() by MatSetValues() to illustrate how to convert petsc dense format to elemental format
only set local values
configure: fix getWindowsNonOptFlags() as its currently returning '-MD' for '-MDd'
bugfix for error message of MatConvert() from dense to elemental
gnumake: use 'make --version' to check for gnumake
SNESLineSearch: remove stale comment from implementation
HandsOn: dos2unix
HandsOn: fix formatting for mpiexec
HandsOn: update commands and datafiles for tutorial-5
HandsOn: fix typos
HandsOn: add in a poisson example
HandsOn: fix typo 'physics' to '-physics'
HandsOn: update output for ex42_tut_3.out.html
HandsOn: fix ts-ex2 runtime option [-da_grid_x to -M] and update output
HandsOn: update line number URLs to the example codes
HandsOn: revert accidental commit d9dc08c3c4ad86f608e3e00539e955e6b7ec9a29
HandsOn: migrate html output files from barry/august-tutorial

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