TEST: MAke sure build env is activated

unit_tests/utils/feedsRun.fslStartup

@@ -6,20 +6,19 @@ import tempfile
 
 import subprocess as sp
 
-def run(cmd, ompthreads=None, blasthreads=None, fslskipglobal=None, keepenv=False):
+def run(cmd, ompthreads=None, blasthreads=None, fslskipglobal=None):
 
     env = os.environ.copy()
 
-    if not keepenv:
-        blacklist = ['OMP', 'GOTO', 'BLAS', 'FSL']
+    blacklist = ['OMP', 'GOTO', 'BLAS', 'FSL']
 
-        for varname in list(env.keys()):
-            if any(b in varname for b in blacklist):
-                env.pop(varname)
+    for varname in list(env.keys()):
+        if any(b in varname for b in blacklist):
+            env.pop(varname)
 
-        if ompthreads    is not None: env['OMP_NUM_THREADS']  = str(ompthreads)
-        if blasthreads   is not None: env['BLAS_NUM_THREADS'] = str(blasthreads)
-        if fslskipglobal is not None: env['FSL_SKIP_GLOBAL']  = str(fslskipglobal)
+    if ompthreads    is not None: env['OMP_NUM_THREADS']  = str(ompthreads)
+    if blasthreads   is not None: env['BLAS_NUM_THREADS'] = str(blasthreads)
+    if fslskipglobal is not None: env['FSL_SKIP_GLOBAL']  = str(fslskipglobal)
 
     result = sp.run(shlex.split(cmd), check=True, text=True,
                     stdout=sp.PIPE, stderr=sp.STDOUT, env=env)
@@ -33,7 +32,10 @@ def run(cmd, ompthreads=None, blasthreads=None, fslskipglobal=None, keepenv=Fals
 
 def main():
 
-    run('make', keepenv=True)
+    buildcmds = ['source $FSLDIR/bin/activate $FSLDIR',
+                 'source $FSLDIR/etc/fslconf/fsl-devel.sh',
+                 'make']
+    sp.run('; '.join(buildcmds), check=True, shell=True)
 
     # Default behaviour should be: OMP multi-threaded, BLAS single threaded.
     assert run('./test_fslStartup', 8, 8) == '8 1 8'