From 9542b24be82b033b749c688170ad7e02799f4979 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Sophia=20M=C3=A4dler?=
 <15019107+sophiamaedler@users.noreply.github.com>
Date: Fri, 20 Dec 2024 17:22:49 +0100
Subject: [PATCH] standardize log output

---
 src/scportrait/pipeline/extraction.py | 4 +---
 1 file changed, 1 insertion(+), 3 deletions(-)

diff --git a/src/scportrait/pipeline/extraction.py b/src/scportrait/pipeline/extraction.py
index 662b96f..afec8da 100644
--- a/src/scportrait/pipeline/extraction.py
+++ b/src/scportrait/pipeline/extraction.py
@@ -813,7 +813,6 @@ def process(self, partial=False, n_cells=None, seed=42):
                 # directory where intermediate results should be saved
                 cache: "/mnt/temp/cache"
         """
-
         total_time_start = timeit.default_timer()
 
         start_setup = timeit.default_timer()
@@ -876,7 +875,7 @@ def process(self, partial=False, n_cells=None, seed=42):
 
             self.log("Running in single threaded mode.")
             results = []
-            for arg in tqdm(args):
+            for arg in tqdm(args, total = len(args), desc = "Processing cell batches"):
                 x = f(arg)
                 results.append(x)
         else:
@@ -919,7 +918,6 @@ def process(self, partial=False, n_cells=None, seed=42):
             self.DEFAULT_LOG_NAME = "processing.log"  # change log name back to default
 
         self._post_extraction_cleanup()
-
         total_time_stop = timeit.default_timer()
         total_time = total_time_stop - total_time_start