dsqa for non-interactive, fixes #8

Author: brevans

dSQ.py

@@ -10,7 +10,7 @@
 import sys
 import re
 
-__version__ = 0.95
+__version__ = 0.96
 
 def safe_fill(text, wrap_width):
     if sys.__stdin__.isatty():

dSQAutopsy.py

@@ -5,19 +5,31 @@
 from textwrap import fill
 from subprocess import check_output
 
-__version__ = 0.95
+__version__ = 0.96
+
+
+def safe_fill(text, wrap_width):
+    if sys.__stdin__.isatty():
+        return fill(text, wrap_width)
+    else:
+        return text
 
 # get terminal columns for wrapping
-term_rows, term_columns = [int(x) for x in check_output(["stty", "size"]).split()]
-if term_columns < 25:
+# Check if dSQ is being run interactively
+if sys.__stdin__.isatty():
+    # get terminal columns for wrapping
+    term_rows, term_columns = [int(x) for x in check_output(["stty", "size"]).split()]
+    if term_columns < 25:
         term_columns = 25
+else:
+    term_columns = 25
 
 desc = """Dead Simple Queue Autopsy v{}
 https://github.com/ycrc/dSQ
 A helper script for analyzing the success state of your jobs after a dSQ run has completed. Specify the job file and the job_jobid_status.tsv file generated by the dSQ job and dSQAutopsy will print the jobs that didn't run or completed with non-zero exit codes. It will also report count of each to stderr.
 
 """.format(__version__)
-"\n".join([fill(x, term_columns-1) for x in str.splitlines(desc)])
+"\n".join([safe_fill(x, term_columns-1) for x in str.splitlines(desc)])
 
 # argument parsing
 parser = argparse.ArgumentParser(description=desc,