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-rw-r--r--gn3/computations/wgcna.py7
1 files changed, 5 insertions, 2 deletions
diff --git a/gn3/computations/wgcna.py b/gn3/computations/wgcna.py
index f0f0fa2..689bc2d 100644
--- a/gn3/computations/wgcna.py
+++ b/gn3/computations/wgcna.py
@@ -22,7 +22,7 @@ def dump_wgcna_data(request_data: dict):
def compose_wgcna_cmd(rscript_path: str, temp_file_path: str):
"""function to componse wgcna cmd"""
- cmd = f"Rscript {rscript_path} {temp_file_path}"
+ cmd = f"Rscript ./scripts/{rscript_path} {temp_file_path}"
return cmd
@@ -32,6 +32,9 @@ def call_wgcna_script(rscript_path: str, request_data: dict):
cmd = compose_wgcna_cmd(rscript_path, generated_file)
try:
- return run_cmd(cmd)
+
+ run_cmd(cmd)
+ with open(generated_file, "r") as outputfile:
+ return results
except Exception as error:
raise error