Count all downloaded RUNs

1 files changed, 27 insertions, 0 deletions

diff --git a/Code/count_runs.py b/Code/count_runs.py
new file mode 100644
index 0000000..c254c31
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+++ b/Code/count_runs.py
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+# Purpose: count the total number of unique run IDs in all TPM files
+# Usage: python3 count_runs.py
+# 16 Aug 2024, zjnu, hui
+
+import glob, gzip
+
+runs = set()
+
+for filename in glob.glob('../Data/history/expr/TPM*'):
+    print(filename)
+    if filename.endswith('txt'):
+        with open(filename) as f:
+            line = f.readlines()[0]
+            line = line.strip()
+            lst = line.split('\t')
+            for runid in lst[1:]:
+                runs.add(runid)
+    elif filename.endswith('gz'):
+        with gzip.open(filename, 'rt') as f:
+            line = f.readlines()[0]
+            line = line.strip()
+            lst = line.split('\t')
+            for runid in lst[1:]:
+                runs.add(runid)
+
+print(runs)
+print('Total unique run IDs: %d' % len(runs))