trying to fix paths again

maxplanck-ie · Nov 7, 2017 · 710f742 · 710f742
1 parent 1c4df66
commit 710f742
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Showing 4 changed files with 7 additions and 7 deletions.
diff --git a/workflows/ChIP-seq/ChIP-seq b/workflows/ChIP-seq/ChIP-seq
@@ -28,9 +28,9 @@ import shutil
 import yaml
 import inspect
 
-sys.path.append(os.path.abspath(os.path.dirname(inspect.getfile(inspect.currentframe()))) + "/shared/")
+#sys.path.append(os.path.abspath(os.path.dirname(inspect.getfile(inspect.currentframe()))) + "/shared/")
 #sys.path.append(os.path.join(os.path.dirname(os.path.dirname(os.path.dirname(inspect.getfile(inspect.currentframe())))))+"/shared/")
-
+sys.path.append(os.path.join(os.path.dirname(os.path.dirname(os.path.dirname(os.path.realpath(inspect.getfile(inspect.currentframe()) )))))+"/shared/")
 
 import common_functions as cf
 

diff --git a/workflows/DNA-mapping/DNA-mapping b/workflows/DNA-mapping/DNA-mapping
@@ -23,8 +23,9 @@ import shutil
 import yaml
 import inspect
 
-#sys.path.append(os.path.join(os.path.dirname(os.path.dirname(os.path.dirname(os.path.realpath('__file__')))))+"/shared/")
-sys.path.append(os.path.abspath(os.path.dirname(inspect.getfile(inspect.currentframe()))) + "/shared/")
+sys.path.append(os.path.join(os.path.dirname(os.path.dirname(os.path.dirname(os.path.realpath(inspect.getfile(inspect.currentframe()) )))))+"/shared/")
+#sys.path.append(os.path.abspath(os.path.dirname(inspect.getfile(inspect.currentframe()))) + "/shared/")
+#sys.path.append(os.path.join(os.path.dirname(os.path.dirname(os.path.dirname(inspect.getfile(inspect.currentframe())))))+"/shared/")
 
 import common_functions as cf
 

diff --git a/workflows/RNA-seq/RNA-seq b/workflows/RNA-seq/RNA-seq
@@ -24,8 +24,7 @@ import yaml
 import re
 import inspect
 
-sys.path.append(os.path.abspath(os.path.dirname(inspect.getfile(inspect.currentframe()))) + "/shared/")
-
+sys.path.append(os.path.join(os.path.dirname(os.path.dirname(os.path.dirname(os.path.realpath(inspect.getfile(inspect.currentframe()) )))))+"/shared/")
 import common_functions as cf
 
 def parse_args(defaults={"verbose":None,"configfile":None,"max_jobs":None,"snakemake_options":None,"tempdir":None,

diff --git a/workflows/scRNAseq/scRNAseq-mapcount b/workflows/scRNAseq/scRNAseq-mapcount
@@ -22,7 +22,7 @@ import shutil
 import yaml
 import inspect
 
-sys.path.append(os.path.abspath(os.path.dirname(inspect.getfile(inspect.currentframe()))) + "/shared/")
+sys.path.append(os.path.join(os.path.dirname(os.path.dirname(os.path.dirname(os.path.realpath(inspect.getfile(inspect.currentframe()) )))))+"/shared/")
 
 import common_functions as cf