Added autosave plots instead of interactive.

Author: StuntsPT

general_plotter.py

@@ -55,7 +55,7 @@ def draw_individual_plots(present_covar, future_covar, rona, marker_name,
     plt.show()
 
 
-def draw_rona_plot(ronas):
+def draw_rona_plot(ronas, outpath):
     """
     Draws a RONA plot of the Nth most represented covariates.
     Plots the RONA+/-Stderr for each of the populations.
@@ -94,4 +94,10 @@ def draw_rona_plot(ronas):
 
     ax.legend(axes, names, loc='center left', bbox_to_anchor=(1, 0.5))
 
-    plt.show()
+    #plt.tight_layout()
+    plt.gcf().subplots_adjust(bottom=0.18)
+    plt.gcf().subplots_adjust(right=0.85)
+
+    fig.savefig(outpath)
+
+    plt.close(fig)

pyRona.py

@@ -238,6 +238,10 @@ def argument_parser(args):
     io_opts.add_argument("-pij", dest="baypass_pij_file", type=str,
                          required=True, help="Baypass pij file.")
 
+    io_opts.add_argument("-out", dest="outfile", type=str,
+                         required=True, help="Path to where RONA plot should "
+                                             "be saved.")
+
     misc_opts.add_argument("-no-plots", dest="plots", action='store_false',
                            help="Pass this option if you don't want "
                                 "individual regression plots to be drawn.",
@@ -286,7 +290,7 @@ def main(params):
     ronas = ronas_filterer(ronas, arg.use_weights, arg.num_covars)
 
     results_summary(ronas, arg.use_weights)
-    gp.draw_rona_plot(ronas)
+    gp.draw_rona_plot(ronas, arg.outfile)
 
 
 if __name__ == "__main__":