intuitive software for ecological and environmental meta-analysis
Python R
Switch branches/tags
Nothing to show
Clone or download
Fetching latest commit…
Cannot retrieve the latest commit at this time.
Permalink
Failed to load latest commit information.
R
building
common_wizard_pages
dataset
datasets_for_debugging/check boxes in study selection screen take too long
doc
images
imputation
model_building
phylo
sample_data
sounds
techdoc
test_sample_data
unittests_redux
.gitignore
COPYRIGHT
LICENSE
README.md
__init__.py
about.py
about.ui
add_interaction.ui
analyses.py
binary_calculator.py
binary_calculator.ui
binary_calculator_test.py
calculate_effect_sizes_dlg.ui
calculate_effect_sizes_wizard.py
clean_build
clean_build_win.bat
conf_level_toolbar_widget.ui
contingency_table.ui
contingency_table_dlg.py
csv_export_dlg.py
csv_export_options_dlg.ui
csv_import_dlg.py
csv_import_dlg.ui
data_exploration_wizards.py
dynamic_wizard.py
edit_data_exploration_plot_form.py
edit_forest_plot.ui
edit_forest_plot_form.py
edit_funnel_plot_form.py
edit_phylo_forest_plot_form.py
ee_model.py
gsetup_win.py
icons.qrc
icons_rc.py
interaction.py
launch.py
ma_wizards.py
mac_prelaunch.py
main_form.py
main_window.ui
make_mac_build
make_mac_build_py2app
make_win_build.bat
meta_progress.py
meta_regression_wizard.py
movefiles
multiple_imputation_meta_analysis_wizard.py
mytableview.py
ome_globals.py
ome_globals_test.py
overwrite_effect_sizes.ui
permutation_wizard.py
preferences_dlg.py
preferences_dlg.ui
prelaunch.py
publication_bias_wizards.py
python_to_R.py
python_to_R_test.py
r_log_dlg.py
results_window.py
results_window.ui
rlog_dlg.ui
rpy2_helper.py
rpy2_helper_test.py
running.ui
scrollable_infobox.py
scrollable_infobox.ui
setup.py
setup_mac_py2app.py
transform_effect_size_wizard.py
ui_about.py
ui_add_interaction.py
ui_binary_calculator.py
ui_conf_level_toolbar_widget.py
ui_contingency_table.py
ui_csv_export_dlg.py
ui_csv_import_dlg.py
ui_edit_forest_plot.py
ui_main_window.py
ui_preferences.py
ui_results_window.py
ui_rlog_dlg.py
ui_running.py
ui_scrollable_infobox.py
useful_dialogs.py
variable_group_graphic.py
write_version.py

README.md

OpenMEE

OpenMEE

To run OpenMEE from source, you'll need to install the corresponding dependencies.

You'll need to install the necessary R packages. First install the dependencies:

From within a (possibly) sudo-ed R session type:

> install.packages(c("metafor","lme4","MCMCpack","igraph", "ape", "mice", "Hmisc"))

Next, you'll need to build and install the openmetar packages and altered HSROC (NOT THE ONE FROM CRAN) package and install them. For now, these packages are located in the OpenMetaAnalyst Repository. These package are distributed with the source (NOT the OpenMEE source; the OpenMetaAnalyst source!) under the "src/R" directory of the OMA repository.

> R CMD build HSROC
> R CMD build openmetar
> sudo R CMD INSTALL HSROC_2.0.5.tar.gz
> sudo R CMD INSTALL openmetar_1.0.tar.gz

Once R is setup for OpenMeta, you'll need to install Python (we use 2.7) and the necessary libraries. You'll need PyQT (and QT: see http://www.riverbankcomputing.co.uk/software/pyqt/intro) installed -- we use PyQt 4.9; your mileage may vary with other versions.

Next, install rpy2 (rpy.sourceforge.net/rpy2.html) in Python. Verify that all is well by executing:

> import rpy2
> from rpy2 import robjects 

At the Python console.

That should be all you need. Once everything is setup, you can launch the program by typing:

> python launch.py

At the console. This should fire up the GUI.

important dependency versions: R : 3.0.1 (2013-05-16) -- "Good Sport" metafor: 1.6.0 pyqt4 : 4.10.1

Unit tests

See https://github.com/gdietz/OpenMEE/wiki/Unit-Testing.