release 3sep

Author: sinamajidian

FastOMA/_config.py

@@ -81,10 +81,7 @@
 
 # batch_roothogs
 big_rhog_filesize_thresh = 600 * 1000
-sum_list_rhogs_filesize_thresh = 1 * 1e5
-
-#big_rhog_filesize_thresh = 600 * 1000
-#sum_list_rhogs_filesize_thresh = 2 * 1e6
+sum_list_rhogs_filesize_thresh = 2 * 1e6
 
 
 # big_rhog_filesize_thresh = 1.6 * 1000  # 600 would be better

FastOMA/collect_subhogs.py

@@ -60,7 +60,7 @@ def collect_subhogs():
     pickle_files_adress = [i for i in pickle_files_adress_raw if i.endswith(".pickle") and i.startswith("file_")]
 
     logger_hog.info("number of pickle files is "+str(len(pickle_files_adress))+".")
-    logger_hog.info("pickle files are " + str(pickle_files_adress) + ".")
+    logger_hog.debug("pickle files are " + str(pickle_files_adress) + ".")
     hogs_a_rhog_xml_all = []
     for pickle_file_adress in pickle_files_adress:
         with open(pickle_folder + pickle_file_adress, 'rb') as handle:

README.md

@@ -216,7 +216,7 @@ You may need to increase the number of opoened files in your system with `ulimit
 
 
 ## Change log
-- prelease
+- Release  v0.1.0: improve nextflow pipeline and outputs. 
 - prelease v.0.0.6: use `--fragment-detection` for `infer-subhogs` and `--low-so-detection --fragment-detection`
 - prelease v.0.0.6: using input hogmpa
 - prelease v.0.0.5: adding pip setup.py