diff options
| -rw-r--r-- | Code/buildRmatrix.py | 1 | ||||
| -rw-r--r-- | Code/download_and_map.py | 2 |
2 files changed, 2 insertions, 1 deletions
diff --git a/Code/buildRmatrix.py b/Code/buildRmatrix.py index ece3794..26893eb 100644 --- a/Code/buildRmatrix.py +++ b/Code/buildRmatrix.py @@ -9,6 +9,7 @@ # Last modified 5 Apr 2017, hui, slcu
# Last modified 25 Oct 2019, hui, zjnu [Comments; add a variable WARN_NA to turn on/off print NA warnings.]
# Last modified 10 Oct 2020, hui, zjnu [note that if there are more than 1000 RNA-seq samples, this script requires at least 7GB memory to run.]
+# TODO: this version is too slow. For example, making a TPM.txt with 5178 columns will take at least 12 hours. Should speed this up by using more memory (e.g., 12 GB), not a big deal nowadays.
import os, sys, glob
from configure import TPM_FILE
diff --git a/Code/download_and_map.py b/Code/download_and_map.py index 93e3400..7bc0dee 100644 --- a/Code/download_and_map.py +++ b/Code/download_and_map.py @@ -156,7 +156,7 @@ def has_no_more_time(times): first_time = times[0] now_time = datetime.now() time_diff = now_time - first_time - if time_diff.total_seconds()/3600 > 18: # started 18 hours ago, should stop now, let the machine rest for 6 hours + if time_diff.total_seconds()/3600 > 8: # started 8 hours ago, should stop now, let the machine rest for 16 hours return True return False |