modify step back to 1000
#!/usr/bin/env python
-# Time-stamp: <2022-09-15 17:38:34 Tao Liu>
+# Time-stamp: <2022-09-17 11:06:32 Tao Liu>
"""Description: MACS v3 main executable.
@@ -829,8 +829,8 @@ def add_hmmratac_parser( subparsers ):
group_misc.add_argument( "--randomSeed", dest = "hmm_randomSeed", type = int,
help = "Seed to set for random sampling of training regions. Default: 10151",
default = 10151 )
- group_misc.add_argument( "--decoding-steps", dest = "decoding_steps", type = int, default = 10000,
- help = "Number of candidate regions to be decoded at a time. The HMM model will be applied with Viterbi to find the optimal state path in each region. bigger the number, faster the decoding process, larger the memory usage. Default: 10000.")
+ group_misc.add_argument( "--decoding-steps", dest = "decoding_steps", type = int, default = 1000,
+ help = "Number of candidate regions to be decoded at a time. The HMM model will be applied with Viterbi to find the optimal state path in each region. bigger the number, 'possibly' faster the decoding process, 'definitely' larger the memory usage. Default: 1000.")
group_misc.add_argument( "-e", "--blacklist", dest = "blacklist", type = str, required = False,
help = "Filename of blacklisted regions to exclude (previously was BED_file). Examples are those from ENCODE. Default: NA" )
group_misc.add_argument( "--keep-duplicates", dest = "misc_keep_duplicates", action = "store_true",
