diff --git a/qiime-1.7.0/qiime.conf b/qiime-1.7.0/qiime.conf
deleted file mode 100644
index 4b46495..0000000
--- a/qiime-1.7.0/qiime.conf
+++ /dev/null
@@ -1,456 +0,0 @@
-##############################################################################
-#
-# qiime.conf
-#
-# qiime-deploy configuration file
-# This file specifies the applications to download and deploy.
-#
-# This file contains a single [global] section and a single [dependencies]
-# section as well as any number of data or application sections. Each section
-# must have a unique name. Data sections must begin with data-
-#
-# See the OPTIONS for a description of each option.
-# 
-##############################################################################
-
-[dependencies]
-commands: gcc, g++, java, javac, ant
-
-[global]
-log-level: INFO
-max-deploy-threads: 6
-append-environment-to-bashrc: yes
-append-environment-to-bashprofile: no
-
-[data-lanemask]
-local-file: lanemask_in_1s_and_0s
-remote-file: http://greengenes.lbl.gov/Download/Sequence_Data/lanemask_in_1s_and_0s
-
-[data-core]
-local-file: core_set_aligned.fasta.imputed
-remote-file: http://greengenes.lbl.gov/Download/Sequence_Data/Fasta_data_files/core_set_aligned.fasta.imputed
-
-[gg_otus]
-version: 12_10
-build-type: copy
-release-file-name: gg_12_10_otus.tar.gz
-release-location: ftp://greengenes.microbio.me/greengenes_release/gg_12_10/gg_12_10_otus.tar.gz
-
-[python]
-version: 2.7.3
-build-type: autoconf
-release-file-name: Python-2.7.3.tgz
-set-environment-variables-value: ATLAS=None,BLAS=None,LAPACK=None
-release-location: http://www.python.org/ftp/python/2.7.3/Python-2.7.3.tgz
-relative-directory-add-to-path: bin
-autoconf-make-options: -j4
-autoconf-configure-options: --enable-shared --enable-unicode=ucs2 --enable-unicode=ucs4
-set-environment-variables-deploypath: LD_LIBRARY_PATH=lib
-
-[cython]
-version: 0.17
-build-type: python-distutils
-release-file-name: Cython-0.17.tar.gz
-release-location: http://cython.org/release/Cython-0.17.tar.gz
-relative-directory-add-to-path: bin
-deps: python
-
-[qiime]
-version: 1.7.0
-build-type: python-distutils
-release-file-name: qiime-1.7.0.tar.gz
-release-location: ftp://thebeast.colorado.edu/pub/qiime-releases/qiime-1.7.0.tar.gz
-relative-directory-add-to-path: bin
-copy-source-to-final-deploy: yes
-deps: pycogent, matplotlib
-set-environment-variables-deploypath: QIIME=./,PYTHONPATH=lib/
-python-install-options: --install-scripts=bin/ --install-purelib=lib/
-
-[MySQL-python]
-version: 1.2.3
-build-type: python-distutils
-release-file-name: MySQL-python-1.2.3.tar.gz
-release-location: http://sourceforge.net/projects/mysql-python/files/mysql-python/1.2.3/MySQL-python-1.2.3.tar.gz
-deps: python, setuptools
-
-[SQLAlchemy]
-version: 0.7.1
-build-type: python-distutils
-release-file-name: SQLAlchemy-0.7.1.tar.gz
-release-location: https://pypi.python.org/packages/source/S/SQLAlchemy/SQLAlchemy-0.7.1.tar.gz
-deps: python
-
-[pycogent]
-version: 1.5.3
-build-type: python-distutils
-release-file-name: PyCogent-1.5.3.tgz
-set-environment-variables-value: TEST_DB=1
-copy-source-to-final-deploy: yes
-release-location: http://downloads.sourceforge.net/project/pycogent/PyCogent/1.5.3/PyCogent-1.5.3.tgz
-deps: numpy
-set-environment-variables-deploypath: PYCOGENT=./
-
-[pynast]
-version: 1.2
-build-type: python-distutils
-release-file-name: PyNAST-1.2.tar.gz
-release-location: https://github.com/downloads/biocore/pynast/PyNAST-1.2.tar.gz
-relative-directory-add-to-path: bin
-deps: pycogent
-
-[numpy]
-version: 1.5.1
-build-type: python-distutils
-release-file-name: numpy-1.5.1.tar.gz
-release-location: http://sourceforge.net/projects/numpy/files/NumPy/1.5.1/numpy-1.5.1.tar.gz
-deps: python
-
-[matplotlib]
-version: 1.1.0
-build-type: python-distutils
-release-file-name: matplotlib-1.1.0.tar.gz
-release-location: http://downloads.sourceforge.net/project/matplotlib/matplotlib/matplotlib-1.1.0/matplotlib-1.1.0.tar.gz
-deps: numpy
-
-[mpi4py]
-version: 1.2.2
-build-type: python-distutils
-release-file-name: mpi4py-1.2.2.tar.gz
-release-location: http://mpi4py.googlecode.com/files/mpi4py-1.2.2.tar.gz
-deps: python
-
-[sphinx]
-version: 1.0.4
-build-type: python-distutils
-release-file-name: Sphinx-1.0.4.tar.gz
-release-location: http://pypi.python.org/packages/source/S/Sphinx/Sphinx-1.0.4.tar.gz#md5=d4067e42e75525ecf108ece471ce97bb
-deps: python, setuptools
-
-[raxml]
-version: 7.3.0
-build-type: make
-release-file-name:stamatak-standard-RAxML-5_7_2012.tgz
-release-location: ftp://thebeast.colorado.edu/pub/QIIME-v1.5.0-dependencies/stamatak-standard-RAxML-5_7_2012.tgz
-make-options: -f Makefile.gcc -j4
-relative-directory-add-to-path: .
-
-[fasttree]
-version: 2.1.3
-build-type: c-file
-release-file-name: FastTree-2.1.3.c
-release-location: http://www.microbesonline.org/fasttree/FastTree-2.1.3.c
-c-file-compile-options: -lm
-exe-name: FastTree
-relative-directory-add-to-path: .
-
-[cdbtools]
-version: 10.11.2010
-build-type: make
-release-file-name: cdbfasta.tar.gz
-release-location: ftp://occams.dfci.harvard.edu/pub/bio/tgi/software/cdbfasta/cdbfasta.tar.gz
-make-options: -j4
-relative-directory-add-to-path: .
-
-# WARNING: This one can take *forever* to download
-[chimeraslayer]
-version: 4.29.2010
-build-type: make
-release-file-name: microbiomeutil_2010-04-29.tar.gz
-release-location: http://sourceforge.net/projects/microbiomeutil/files/__OLD_VERSIONS/microbiomeutil_2010-04-29.tar.gz
-make-options: -j4
-relative-directory-add-to-path: NAST-iEr, ChimeraSlayer
-
-[cdhit]
-version: 3.1
-build-type: make
-release-file-name: cd-hit-2007-0131.tar.gz
-unzipped-name: cd-hit
-release-location: ftp://thebeast.colorado.edu/pub/QIIME-v1.5.0-dependencies/cd-hit-2007-0131.tgz
-relative-directory-add-to-path: .
-make-options: -j4
-
-[rdpclassifier]
-version: 2.2
-build-type: copy
-release-file-name: rdp_classifier_2.2.zip
-unzipped-name: rdp_classifier_2.2
-release-location: http://sourceforge.net/projects/rdp-classifier/files/rdp-classifier/rdp_classifier_2.2.zip
-relative-directory-add-to-path: .
-set-environment-variables-deploypath: RDP_JAR_PATH=rdp_classifier-2.2.jar
-
-[blast]
-version: 2.2.22
-build-type: copy
-release-file-name: blast-2.2.22-x64-linux.tar.gz
-unzipped-name: blast-2.2.22
-release-location: ftp://ftp.ncbi.nlm.nih.gov/blast/executables/release/2.2.22/blast-2.2.22-x64-linux.tar.gz
-relative-directory-add-to-path: bin
-set-environment-variables-deploypath: BLASTMAT=data
-
-[muscle]
-version: 3.8.31
-build-type: copy
-skip-unzipped-name: yes
-release-file-name: muscle3.8.31_i86linux64.tar.gz
-post-bash-commands: ln -s muscle3.8.31_i86linux64 muscle
-release-location: http://www.drive5.com/muscle/downloads3.8.31/muscle3.8.31_i86linux64.tar.gz
-relative-directory-add-to-path: .
-
-[infernal]
-version: 1.0.2
-build-type: autoconf
-release-file-name: infernal-1.0.2.tar.gz
-release-location: ftp://selab.janelia.org/pub/software/infernal/infernal-1.0.2.tar.gz
-relative-directory-add-to-path: bin
-autoconf-make-options: -j4
-
-[cytoscape]
-version: 2.7.0
-build-type: ant
-release-file-name: cytoscapeSource-v2.7.0.tar.gz
-skip-unzipped-name: yes
-release-location: http://chianti.ucsd.edu/Cyto-2_7_0/cytoscapeSource-v2.7.0.tar.gz
-relative-directory-add-to-path: .
-
-[clearcut]
-version: 1.0.9
-build-type: make
-release-file-name: clearcut-1.0.9.tar.gz
-release-location: http://bioinformatics.hungry.com/clearcut/clearcut-1.0.9.tar.gz
-relative-directory-add-to-path: .
-make-options: -j4
-
-[mothur]
-version: 1.25.0
-build-type: copy
-release-file-name: mothur-1.25.0.tar.gz
-release-location: ftp://thebeast.colorado.edu/pub/QIIME-v1.6.0-dependencies/mothur-1.25.0.tar.gz
-relative-directory-add-to-path: .
-
-[uclust]
-version: 1.2.22
-build-type: custom
-release-file-name: uclustq1.2.22_i86linux64
-release-location: http://drive5.com/uclust/uclustq1.2.22_i86linux64
-relative-directory-add-to-path: .
-
-[r]
-version: 2.12.0
-build-type: autoconf
-release-file-name: R-2.12.0.tar.gz
-release-location: http://cran.case.edu/src/base/R-2/R-2.12.0.tar.gz
-relative-directory-add-to-path: bin
-autoconf-make-options: -j4
-
-[random-forest]
-version: latest
-build-type: r-package
-r-package-name: randomForest
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[optparse]
-version: latest
-build-type: r-package
-r-package-name: optparse
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[vegan]
-version: latest
-build-type: r-package
-r-package-name: vegan
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[ape]
-version: latest
-build-type: r-package
-r-package-name: ape
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[gtools]
-version: latest
-build-type: r-package
-r-package-name: gtools
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[klar]
-version: latest
-build-type: r-package
-r-package-name: klaR
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[r-color-brewer]
-version: latest
-build-type: r-package
-r-package-name: RColorBrewer
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[ampliconnoise]
-version: 1.27
-build-type: custom
-release-file-name: AmpliconNoiseV1.27.tar.gz
-release-location: http://ampliconnoise.googlecode.com/files/AmpliconNoiseV1.27.tar.gz
-relative-directory-add-to-path: bin,Scripts
-set-environment-variables-deploypath: PYRO_LOOKUP_FILE=Data/LookUp_E123.dat,SEQ_LOOKUP_FILE=Data/Tran.dat
-
-[vienna]
-version: 1.8.4
-build-type: custom
-release-file-name: ViennaRNA-1.8.4.tar.gz
-unzipped-name: ViennaRNA-1.8.4
-release-location: http://www.tbi.univie.ac.at/RNA/packages/source/ViennaRNA-1.8.4.tar.gz
-autoconf-configure-options: --without-perl
-relative-directory-add-to-path: .
-
-[pprospector]
-version: 1.0.1
-build-type: python-distutils
-release-file-name: pprospector-1.0.1.tar.gz
-release-location: http://sourceforge.net/projects/pprospector/files/pprospector-1.0.1.tar.gz
-relative-directory-add-to-path: bin
-deps: pycogent
-
-[biom-format]
-version: 1.1.2
-build-type: python-distutils
-release-file-name: biom-format-1.1.2.tar.gz
-release-location: ftp://thebeast.colorado.edu/pub/biom-format-releases/biom-format-1.1.2.tar.gz
-relative-directory-add-to-path: bin
-deps: python, cython, numpy
-
-[rtax]
-version: 0.983
-build-type: copy
-release-file-name: rtax-0.983.tgz
-release-location: http://static.davidsoergel.com/rtax-0.983.tgz
-relative-directory-add-to-path: .
-
-[ipython]
-version: latest
-build-type: python-distutils
-repository-local-name: ipython
-repository-location: git://github.com/ipython/ipython.git
-relative-directory-add-to-path: bin
-repository-type: git
-deps: python
-
-[parsinsert]
-version: 1.0.4
-build-type: make
-release-file-name: ParsInsert.1.04.tgz
-release-location: http://downloads.sourceforge.net/project/parsinsert/ParsInsert.1.04.tgz
-relative-directory-add-to-path: .
-make-options: -j4
-skip-unzipped-name: yes
-
-[drisee]
-version: 1.2
-build-type: copy
-release-file-name: MG-RAST-DRISEE-v1.2-0-g-195855.zip
-unzipped-name: MG-RAST-DRISEE-7b40fae
-release-location: https://github.com/MG-RAST/DRISEE/zipball/v1.2
-relative-directory-add-to-path: .
-
-[tornado]
-version: 2.2.1
-build-type: python-distutils
-release-file-name: tornado-2.2.1.tar.gz
-release-location: http://github.com/downloads/facebook/tornado/tornado-2.2.1.tar.gz
-relative-directory-add-to-path: bin
-deps: python
-
-[pyzmq]
-version: 2.1.11
-build-type: python-distutils
-release-file-name: pyzmq-2.1.11.tar.gz
-release-location: http://pypi.python.org/packages/source/p/pyzmq/pyzmq-2.1.11.tar.gz
-relative-directory-add-to-path: bin
-deps: python
-
-[pplacer]
-version: 1.1
-build-type: copy
-release-file-name: pplacer-v1.1-Linux.tar.gz
-unzipped-name: pplacer-v1.1.alpha15-Linux-3.2.0
-release-location: http://matsen.fhcrc.org/pplacer/builds/pplacer-v1.1-Linux.tar.gz
-relative-directory-add-to-path: .
-
-[setuptools]
-version: 0.6c11
-build-type: python-distutils
-release-file-name: setuptools-0.6c11.tar.gz
-release-location: http://pypi.python.org/packages/source/s/setuptools/setuptools-0.6c11.tar.gz
-deps: python
-
-[bwa]
-version: 0.6.2
-build-type: make
-release-file-name: bwa-0.6.2.tar.bz2
-unzipped-name: bwa-0.6.2
-release-location: http://downloads.sourceforge.net/project/bio-bwa/bwa-0.6.2.tar.bz2
-relative-directory-add-to-path: .
-
-[blat]
-version: 34
-build-type: copy
-release-file-name: blatSuite.34.zip
-release-location: http://hgwdev.cse.ucsc.edu/~kent/exe/linux/blatSuite.34.zip
-relative-directory-add-to-path: .
-skip-unzipped-name: yes
-
-[sourcetracker]
-version: 0.9.5
-build-type: copy
-release-file-name: sourcetracker-0.9.5.tar.gz
-release-location: http://sourceforge.net/projects/sourcetracker/files/sourcetracker-0.9.5.tar.gz
-relative-directory-add-to-path: .
-set-environment-variables-deploypath: SOURCETRACKER_PATH=.
-
-[tax2tree]
-version: 1.0
-build-type: python-distutils
-release-file-name: tax2tree-v1.0.tar.gz
-release-location: https://downloads.sourceforge.net/project/tax2tree/tax2tree-v1.0.tar.gz
-relative-directory-add-to-path: bin
-deps: pycogent
-
-[gdata]
-version: 2.0.17
-build-type: python-distutils
-release-file-name: gdata-2.0.17.tar.gz
-release-location: http://gdata-python-client.googlecode.com/files/gdata-2.0.17.tar.gz
-deps: python
-
-[emperor]
-version: 0.0.0
-build-type: python-distutils
-repository-local-name: emperor
-repository-location: git://github.com/qiime/emperor.git
-repository-type: git
-relative-directory-add-to-path: bin
-deps: pycogent, numpy, qiime
-set-environment-variables-deploypath: PYTHONPATH=lib/
-python-install-options: --install-scripts=bin/ --install-purelib=lib/
-
-[qiime-galaxy]
-version: 0.0.1
-build-type: copy
-repository-local-name: qiime-galaxy
-repository-location: git://github.com/qiime/qiime-galaxy.git
-repository-type: git
-relative-directory-add-to-path: scripts
-deps: python, qiime
-set-environment-variables-deploypath: PYTHONPATH=lib/
-
-[galaxy]
-version: release_2013.01.13
-build-type: copy
-release-file-name: galaxy-galaxy-dist-a4113cc1cb5e.tar.gz
-release-location: https://bitbucket.org/galaxy/galaxy-dist/get/release_2013.01.13.tar.gz
-deps: python, qiime, qiime-galaxy
diff --git a/qiime-1.8.0/qiime.conf b/qiime-1.8.0/qiime.conf
deleted file mode 100644
index 2637c87..0000000
--- a/qiime-1.8.0/qiime.conf
+++ /dev/null
@@ -1,488 +0,0 @@
-##############################################################################
-#
-# qiime.conf
-#
-# qiime-deploy configuration file
-# This file specifies the applications to download and deploy.
-#
-# This file contains a single [global] section and a single [dependencies]
-# section as well as any number of data or application sections. Each section
-# must have a unique name. Data sections must begin with data-
-#
-# See the OPTIONS for a description of each option.
-# 
-##############################################################################
-
-[dependencies]
-commands: gcc, g++, java, javac, ant
-
-[global]
-log-level: INFO
-max-deploy-threads: 6
-append-environment-to-bashrc: yes
-append-environment-to-bashprofile: no
-
-[data-lanemask]
-local-file: lanemask_in_1s_and_0s
-remote-file: http://greengenes.lbl.gov/Download/Sequence_Data/lanemask_in_1s_and_0s
-
-[data-core]
-local-file: core_set_aligned.fasta.imputed
-remote-file: http://greengenes.lbl.gov/Download/Sequence_Data/Fasta_data_files/core_set_aligned.fasta.imputed
-
-[gg_otus]
-version: 13_8
-build-type: copy
-release-file-name: gg_13_8_otus.tar.gz
-release-location: ftp://greengenes.microbio.me/greengenes_release/gg_13_5/gg_13_8_otus.tar.gz
-
-[python]
-version: 2.7.3
-build-type: autoconf
-release-file-name: Python-2.7.3.tgz
-set-environment-variables-value: ATLAS=None,BLAS=None,LAPACK=None
-release-location: http://www.python.org/ftp/python/2.7.3/Python-2.7.3.tgz
-relative-directory-add-to-path: bin
-autoconf-make-options: -j4
-autoconf-configure-options: --enable-shared --enable-unicode=ucs2 --enable-unicode=ucs4
-set-environment-variables-deploypath: LD_LIBRARY_PATH=lib
-
-[qiime]
-version: 1.8.0
-build-type: python-distutils
-release-file-name: qiime-1.8.0.tar.gz
-release-location: https://pypi.python.org/packages/source/q/qiime/qiime-1.8.0.tar.gz
-relative-directory-add-to-path: bin
-copy-source-to-final-deploy: yes
-deps: pycogent, matplotlib
-set-environment-variables-deploypath: QIIME=./,PYTHONPATH=lib/
-python-install-options: --install-scripts=bin/ --install-purelib=lib/
-
-[MySQL-python]
-version: 1.2.3
-build-type: python-distutils
-release-file-name: MySQL-python-1.2.3.tar.gz
-release-location: http://sourceforge.net/projects/mysql-python/files/mysql-python/1.2.3/MySQL-python-1.2.3.tar.gz
-deps: python, setuptools
-
-[SQLAlchemy]
-version: 0.7.1
-build-type: python-distutils
-release-file-name: SQLAlchemy-0.7.1.tar.gz
-release-location: https://pypi.python.org/packages/source/S/SQLAlchemy/SQLAlchemy-0.7.1.tar.gz
-deps: python
-
-[pycogent]
-version: 1.5.3
-build-type: python-distutils
-release-file-name: PyCogent-1.5.3.tgz
-set-environment-variables-value: TEST_DB=1
-copy-source-to-final-deploy: yes
-release-location: http://downloads.sourceforge.net/project/pycogent/PyCogent/1.5.3/PyCogent-1.5.3.tgz
-deps: numpy
-set-environment-variables-deploypath: PYCOGENT=./
-
-[pynast]
-version: 1.2.2
-build-type: python-distutils
-release-file-name: pynast-1.2.2.tar.gz
-release-location: https://pypi.python.org/packages/source/p/pynast/pynast-1.2.2.tar.gz
-relative-directory-add-to-path: bin
-deps: pycogent
-
-[numpy]
-version: 1.7.1
-build-type: python-distutils
-release-file-name: numpy-1.7.1.tar.gz
-release-location: http://sourceforge.net/projects/numpy/files/NumPy/1.7.1/numpy-1.7.1.tar.gz
-deps: python
-
-[matplotlib]
-version: 1.3.1
-build-type: python-distutils
-release-file-name: matplotlib-1.3.1.tar.gz
-release-location: http://downloads.sourceforge.net/project/matplotlib/matplotlib/matplotlib-1.3.1/matplotlib-1.3.1.tar.gz
-deps: numpy
-
-[mpi4py]
-version: 1.2.2
-build-type: python-distutils
-release-file-name: mpi4py-1.2.2.tar.gz
-release-location: http://mpi4py.googlecode.com/files/mpi4py-1.2.2.tar.gz
-deps: python
-
-[sphinx]
-version: 1.0.4
-build-type: python-distutils
-release-file-name: Sphinx-1.0.4.tar.gz
-release-location: http://pypi.python.org/packages/source/S/Sphinx/Sphinx-1.0.4.tar.gz#md5=d4067e42e75525ecf108ece471ce97bb
-deps: python, setuptools
-
-[raxml]
-version: 7.3.0
-build-type: make
-release-file-name:stamatak-standard-RAxML-5_7_2012.tgz
-release-location: ftp://thebeast.colorado.edu/pub/QIIME-v1.5.0-dependencies/stamatak-standard-RAxML-5_7_2012.tgz
-make-options: -f Makefile.gcc -j4
-relative-directory-add-to-path: .
-
-[fasttree]
-version: 2.1.3
-build-type: c-file
-release-file-name: FastTree-2.1.3.c
-release-location: http://www.microbesonline.org/fasttree/FastTree-2.1.3.c
-c-file-compile-options: -lm
-exe-name: FastTree
-relative-directory-add-to-path: .
-
-[cdbtools]
-version: 10.11.2010
-build-type: make
-release-file-name: cdbfasta.tar.gz
-release-location: ftp://occams.dfci.harvard.edu/pub/bio/tgi/software/cdbfasta/cdbfasta.tar.gz
-make-options: -j4
-relative-directory-add-to-path: .
-
-# WARNING: This one can take *forever* to download
-[chimeraslayer]
-version: 4.29.2010
-build-type: make
-release-file-name: microbiomeutil_2010-04-29.tar.gz
-release-location: http://sourceforge.net/projects/microbiomeutil/files/__OLD_VERSIONS/microbiomeutil_2010-04-29.tar.gz
-make-options: -j4
-relative-directory-add-to-path: NAST-iEr, ChimeraSlayer
-
-[cdhit]
-version: 3.1
-build-type: make
-release-file-name: cd-hit-2007-0131.tar.gz
-unzipped-name: cd-hit
-release-location: ftp://thebeast.colorado.edu/pub/QIIME-v1.5.0-dependencies/cd-hit-2007-0131.tgz
-relative-directory-add-to-path: .
-make-options: -j4
-
-[rdpclassifier]
-version: 2.2
-build-type: copy
-release-file-name: rdp_classifier_2.2.zip
-unzipped-name: rdp_classifier_2.2
-release-location: http://sourceforge.net/projects/rdp-classifier/files/rdp-classifier/rdp_classifier_2.2.zip
-relative-directory-add-to-path: .
-set-environment-variables-deploypath: RDP_JAR_PATH=rdp_classifier-2.2.jar
-
-[blast]
-version: 2.2.22
-build-type: copy
-release-file-name: blast-2.2.22-x64-linux.tar.gz
-unzipped-name: blast-2.2.22
-release-location: ftp://ftp.ncbi.nlm.nih.gov/blast/executables/release/2.2.22/blast-2.2.22-x64-linux.tar.gz
-relative-directory-add-to-path: bin
-set-environment-variables-deploypath: BLASTMAT=data
-
-[muscle]
-version: 3.8.31
-build-type: copy
-skip-unzipped-name: yes
-release-file-name: muscle3.8.31_i86linux64.tar.gz
-post-bash-commands: ln -s muscle3.8.31_i86linux64 muscle
-release-location: http://www.drive5.com/muscle/downloads3.8.31/muscle3.8.31_i86linux64.tar.gz
-relative-directory-add-to-path: .
-
-[infernal]
-version: 1.0.2
-build-type: autoconf
-release-file-name: infernal-1.0.2.tar.gz
-release-location: ftp://selab.janelia.org/pub/software/infernal/infernal-1.0.2.tar.gz
-relative-directory-add-to-path: bin
-autoconf-make-options: -j4
-
-[cytoscape]
-version: 2.7.0
-build-type: ant
-release-file-name: cytoscapeSource-v2.7.0.tar.gz
-skip-unzipped-name: yes
-release-location: http://chianti.ucsd.edu/Cyto-2_7_0/cytoscapeSource-v2.7.0.tar.gz
-relative-directory-add-to-path: .
-
-[clearcut]
-version: 1.0.9
-build-type: make
-release-file-name: clearcut-1.0.9.tar.gz
-release-location: http://bioinformatics.hungry.com/clearcut/clearcut-1.0.9.tar.gz
-relative-directory-add-to-path: .
-make-options: -j4
-
-[mothur]
-version: 1.25.0
-build-type: copy
-release-file-name: mothur-1.25.0.tar.gz
-release-location: ftp://thebeast.colorado.edu/pub/QIIME-v1.6.0-dependencies/mothur-1.25.0.tar.gz
-relative-directory-add-to-path: .
-
-[uclust]
-version: 1.2.22
-build-type: custom
-release-file-name: uclustq1.2.22_i86linux64
-release-location: http://drive5.com/uclust/uclustq1.2.22_i86linux64
-relative-directory-add-to-path: .
-
-[r]
-version: 3.0.2
-build-type: autoconf
-release-file-name: R-3.0.2.tar.gz
-release-location: http://cran.case.edu/src/base/R-3/R-3.0.2.tar.gz
-relative-directory-add-to-path: bin
-autoconf-configure-options: --without-x
-autoconf-make-options: -j4
-
-[random-forest]
-version: latest
-build-type: r-package
-r-package-name: randomForest
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[optparse]
-version: latest
-build-type: r-package
-r-package-name: optparse
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[vegan]
-version: latest
-build-type: r-package
-r-package-name: vegan
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[ape]
-version: latest
-build-type: r-package
-r-package-name: ape
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[gtools]
-version: latest
-build-type: r-package
-r-package-name: gtools
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[klar]
-version: latest
-build-type: r-package
-r-package-name: klaR
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[r-color-brewer]
-version: latest
-build-type: r-package
-r-package-name: RColorBrewer
-r-package-repo: http://cran.r-project.org
-deps: r
-
-[ampliconnoise]
-version: 1.27
-build-type: custom
-release-file-name: AmpliconNoiseV1.27.tar.gz
-release-location: http://ampliconnoise.googlecode.com/files/AmpliconNoiseV1.27.tar.gz
-relative-directory-add-to-path: bin,Scripts
-set-environment-variables-deploypath: PYRO_LOOKUP_FILE=Data/LookUp_E123.dat,SEQ_LOOKUP_FILE=Data/Tran.dat
-
-[vienna]
-version: 1.8.4
-build-type: custom
-release-file-name: ViennaRNA-1.8.4.tar.gz
-unzipped-name: ViennaRNA-1.8.4
-release-location: http://www.tbi.univie.ac.at/RNA/packages/source/ViennaRNA-1.8.4.tar.gz
-autoconf-configure-options: --without-perl
-relative-directory-add-to-path: .
-
-[pprospector]
-version: 1.0.1
-build-type: python-distutils
-release-file-name: pprospector-1.0.1.tar.gz
-release-location: http://sourceforge.net/projects/pprospector/files/pprospector-1.0.1.tar.gz
-relative-directory-add-to-path: bin
-deps: pycogent
-
-[biom-format]
-version: 1.3.1
-build-type: python-distutils
-release-file-name: biom-format-1.3.1.tar.gz
-release-location: https://pypi.python.org/packages/source/b/biom-format/biom-format-1.3.1.tar.gz
-relative-directory-add-to-path: bin
-deps: python, numpy, pyqi
-
-[rtax]
-version: 0.984
-build-type: copy
-release-file-name: rtax-0.984.tgz
-release-location: http://static.davidsoergel.com/rtax-0.984.tgz
-relative-directory-add-to-path: .
-
-[ipython]
-version: latest
-build-type: python-distutils
-repository-local-name: ipython
-repository-location: git://github.com/ipython/ipython.git
-relative-directory-add-to-path: bin
-repository-type: git
-deps: python
-
-[parsinsert]
-version: 1.0.4
-build-type: make
-release-file-name: ParsInsert.1.04.tgz
-release-location: http://downloads.sourceforge.net/project/parsinsert/ParsInsert.1.04.tgz
-relative-directory-add-to-path: .
-make-options: -j4
-skip-unzipped-name: yes
-
-[drisee]
-version: 1.2
-build-type: copy
-release-file-name: MG-RAST-DRISEE-v1.2-0-g-195855.zip
-unzipped-name: MG-RAST-DRISEE-7b40fae
-release-location: https://github.com/MG-RAST/DRISEE/zipball/v1.2
-relative-directory-add-to-path: .
-
-[tornado]
-version: 3.1.1
-build-type: python-distutils
-release-file-name: tornado-3.1.1.tar.gz
-release-location: https://github.com/facebook/tornado/archive/v3.1.1.tar.gz
-relative-directory-add-to-path: bin
-deps: python
-
-[pyzmq]
-version: 2.1.11
-build-type: python-distutils
-release-file-name: pyzmq-2.1.11.tar.gz
-release-location: http://pypi.python.org/packages/source/p/pyzmq/pyzmq-2.1.11.tar.gz
-relative-directory-add-to-path: bin
-deps: python
-
-[pplacer]
-version: 1.1
-build-type: copy
-release-file-name: pplacer-v1.1-Linux.tar.gz
-unzipped-name: pplacer-v1.1.alpha16-1-gf748c91-Linux-3.2.0
-release-location: http://matsen.fhcrc.org/pplacer/builds/pplacer-v1.1-Linux.tar.gz
-relative-directory-add-to-path: .
-
-[setuptools]
-version: 0.6c11
-build-type: python-distutils
-release-file-name: setuptools-0.6c11.tar.gz
-release-location: http://pypi.python.org/packages/source/s/setuptools/setuptools-0.6c11.tar.gz
-deps: python
-
-[bwa]
-version: 0.6.2
-build-type: make
-release-file-name: bwa-0.6.2.tar.bz2
-unzipped-name: bwa-0.6.2
-release-location: http://downloads.sourceforge.net/project/bio-bwa/bwa-0.6.2.tar.bz2
-relative-directory-add-to-path: .
-
-[blat]
-version: 34
-build-type: copy
-release-file-name: blatSuite.34.zip
-release-location: http://hgwdev.cse.ucsc.edu/~kent/exe/linux/blatSuite.34.zip
-relative-directory-add-to-path: .
-skip-unzipped-name: yes
-
-[sourcetracker]
-version: 0.9.5
-build-type: copy
-release-file-name: sourcetracker-0.9.5.tar.gz
-release-location: http://sourceforge.net/projects/sourcetracker/files/sourcetracker-0.9.5.tar.gz
-relative-directory-add-to-path: .
-set-environment-variables-deploypath: SOURCETRACKER_PATH=.
-
-[tax2tree]
-version: 1.0
-build-type: python-distutils
-release-file-name: tax2tree-v1.0.tar.gz
-release-location: https://downloads.sourceforge.net/project/tax2tree/tax2tree-v1.0.tar.gz
-relative-directory-add-to-path: bin
-deps: pycogent
-
-[gdata]
-version: 2.0.17
-build-type: python-distutils
-release-file-name: gdata-2.0.17.tar.gz
-release-location: http://gdata-python-client.googlecode.com/files/gdata-2.0.17.tar.gz
-deps: python
-
-[emperor]
-version: 0.9.3
-build-type: python-distutils
-release-file-name: emperor-0.9.3.tar.gz
-release-location: https://pypi.python.org/packages/source/e/emperor/emperor-0.9.3.tar.gz
-relative-directory-add-to-path: bin
-deps: numpy, qcli, setuptools
-
-[qiime-galaxy]
-version: 0.0.1
-build-type: copy
-repository-local-name: qiime-galaxy
-repository-location: git://github.com/qiime/qiime-galaxy.git
-repository-type: git
-relative-directory-add-to-path: scripts
-deps: python, qiime
-set-environment-variables-deploypath: PYTHONPATH=lib/
-
-[galaxy]
-version: release_2013.01.13
-build-type: copy
-release-file-name: galaxy-galaxy-dist-a4113cc1cb5e.tar.gz
-release-location: https://bitbucket.org/galaxy/galaxy-dist/get/release_2013.01.13.tar.gz
-deps: python, qiime, qiime-galaxy
-
-[qcli]
-version: 0.1.0
-build-type: python-distutils
-release-file-name: qcli-0.1.0.tar.gz
-release-location: ftp://thebeast.colorado.edu/pub/qcli-releases/qcli-0.1.0.tar.gz
-relative-directory-add-to-path: bin
-deps: python
-
-[pyqi]
-version: 0.3.1
-build-type: python-distutils
-release-file-name: pyqi-0.3.1.tar.gz
-release-location: https://pypi.python.org/packages/source/p/pyqi/pyqi-0.3.1.tar.gz
-relative-directory-add-to-path: bin
-deps: python, setuptools
-
-[pysqlite]
-version: 2.6.3
-build-type: python-distutils
-release-file-name: pysqlite-2.6.3.tar.gz
-release-location: ftp://thebeast.colorado.edu/pub/QIIME-v1.8.0-dependencies/pysqlite-2.6.3.tar.gz
-set-environment-variables-deploypath: PYTHONPATH=lib/
-deps: python
-
-[ea-utils]
-version: 1.1.2-537
-build-type: make
-release-file-name: ea-utils.1.1.2-537.tar.gz
-release-location: https://ea-utils.googlecode.com/files/ea-utils.1.1.2-537.tar.gz
-relative-directory-add-to-path: .
-
-[SeqPrep]
-version: latest
-build-type: make
-# These CFLAGS are the same as what's in the makefile, minus -Werror, which was
-# making the build fail on any warnings.
-make-options: CFLAGS='-c -Wall -O0 -g'
-repository-local-name: SeqPrep
-repository-location: git://github.com/jstjohn/SeqPrep.git
-relative-directory-add-to-path: .
-repository-type: git