From 903af1c0b1f2cc695ea4e0c31438f9205571d15d Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Wed, 27 Apr 2022 17:37:22 +0300
Subject: Implement command-line interface for QC of files

---
 quality_control/average.py        | 2 +-
 quality_control/parsing.py        | 3 +--
 quality_control/standard_error.py | 2 +-
 3 files changed, 3 insertions(+), 4 deletions(-)

(limited to 'quality_control')

diff --git a/quality_control/average.py b/quality_control/average.py
index 3261e1c..2907b9c 100644
--- a/quality_control/average.py
+++ b/quality_control/average.py
@@ -8,6 +8,6 @@ def valid_value(val):
     if re.search(r"^[0-9]+\.[0-9]{3}$", val):
         return float(val)
     raise InvalidCellValue(
-        f"Invalid value '{val}'.\n"
+        f"Invalid value '{val}'. "
         "Expected string representing a number with exactly three decimal "
         "places.")
diff --git a/quality_control/parsing.py b/quality_control/parsing.py
index a4edb0f..9fe88f1 100644
--- a/quality_control/parsing.py
+++ b/quality_control/parsing.py
@@ -62,7 +62,7 @@ def parse_file(filepath: str, filetype: FileType, strains: list):
         with open(filepath, encoding="utf-8") as input_file:
             for line_number, line in enumerate(input_file):
                 if line_number == 0:
-                    yield __parse_header(line, strains)
+                    yield __parse_header(line, strains), seek_pos + len(line)
                     seek_pos = seek_pos + len(line)
                     continue
 
@@ -83,7 +83,6 @@ def parse_file(filepath: str, filetype: FileType, strains: list):
 def parse_errors(filepath: str, filetype: FileType, strains: list,
                  seek_pos: int = 0) -> Generator:
     """Retrieve ALL the parse errors"""
-    print(f"seek_pos: {seek_pos}, {type(seek_pos)}")
     assert seek_pos >= 0, "The seek position must be at least zero (0)"
 
     def __error_type(error):
diff --git a/quality_control/standard_error.py b/quality_control/standard_error.py
index 805c30e..f1e33c4 100644
--- a/quality_control/standard_error.py
+++ b/quality_control/standard_error.py
@@ -8,6 +8,6 @@ def valid_value(val):
     if re.search(r"^[0-9]+\.[0-9]{6,}$", val):
         return float(val)
     raise InvalidCellValue(
-        f"Invalid value '{val}'.\n"
+        f"Invalid value '{val}'. "
         "Expected string representing a number with at least six decimal "
         "places.")
-- 
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