RF: Installation is now performed in two steps - fsl-base first, then

everything else

manifest_rules/__init__.py

 #!/usr/bin/env python
 
 
-__version__ = '0.3.12'
+__version__ = '0.4.0'

manifest_rules/test_environment.py

@@ -75,10 +75,23 @@ def full_test(envfile, release_info):
 
     preprocess_environment(envfile, 'fsl', True)
 
+    basever = None
+    with open(envfile, 'rt') as f:
+        for line in f:
+            if line.strip().startswith('- fsl-base'):
+                basever = line.strip().split()[2]
+                break
+
     env = os.environ.copy()
     env['CONDARC'] = op.abspath(op.join('fsl', 'condarc'))
 
-    env_out =  sprun(f'./fsl/bin/conda env update -n base -f {envfile}',
+    if basever is None:
+        env_out = ''
+    else:
+        env_out = sprun(f'./fsl/bin/conda install -y '
+                        '-n base fsl-base={basever}')
+
+    env_out += sprun(f'./fsl/bin/conda env update -n base -f {envfile}',
                      env=env)
 
     return install_out, env_out