Add drop missing as option to CLI

Author: adelavega

neuroscout_cli/cli.py

@@ -2,7 +2,7 @@
 neuroscout
 
 Usage:
-    neuroscout run [-ui <dir> -s <k> -w <dir> -c <n> -n <nv>] <outdir> <bundle_id>...
+    neuroscout run [-ui <dir> -s <k> -w <dir> -c <n> -n <nv> -d] <outdir> <bundle_id>...
     neuroscout install [-ui <dir>] <bundle_id>...
     neuroscout ls <bundle_id>
     neuroscout -h | --help
@@ -18,6 +18,7 @@
     -u, --unlock             Unlock datalad dataset
     -n, --neurovault <nv>    Upload mode (disable, force, or enable)
                              [default: enable]
+    -d, --drop-missing       Drop missing contrast
 
 Commands:
     run                      Runs a first level, group level, or full analysis.

neuroscout_cli/commands/run.py

@@ -47,7 +47,7 @@ def run(self):
             if name.startswith('--'):
                 if value is True:
                     fitlins_args.append('{}'.format(name))
-                if value is not None and value is not False:
+                elif value is not None and value is not False:
                     fitlins_args.append('{}={}'.format(name, value))
             else:
                 if value is not False and value is not None: