add version file

cas-bioinf · Nov 6, 2018 · 763c212 · 763c212
1 parent b75e713
commit 763c212
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Showing 5 changed files with 16 additions and 2 deletions.
diff --git a/VERSION b/VERSION
@@ -0,0 +1 @@
+0.0.6
diff --git a/docs/help.md b/docs/help.md
@@ -109,11 +109,14 @@ In the secondary structure prediction the pipeline can use multiple approaches (
 The prediction methods can be (roughly) divided to following groups:
 
 - Predict structure independently on other extended sequences
-    The advantage here is robustness to possible improper parameter choice.
+
+    The main advantage here is that these methods can be used even if
+     only fragments and low scoring hits are in the output.
     - [rnafold](prediction_methods.md#rnafold)
     - [subopt_fold_query](prediction_methods.md#subopt_fold_query)
     - [rfam_rnafoldc](prediction_methods.md#rfam_rnafoldc)
     - [rfam_subopt](prediction_methods.md#rfam_subopt)
+    - [TurboFold_fast](prediction_methods.md#TurboFold_fast) (with max_seqs_in_prediction = 2)
 
 - Use _trusted_ extended sequences as reference
     - [centroid_homfold](prediction_methods.md#centroid_homfold)

diff --git a/readme.md b/readme.md
@@ -13,6 +13,9 @@ Sequences are analyzed with RSEARCH and its bit-score is used as
 Next sequences are predicted with one or more methods and predicted
  structures are merged with blast output to be easy to understand.
 
+More information on the pipeline is avalible in the [docs](docs/help.md) section.
+
+
 ## Installation
 
 ### Install via Conda

diff --git a/rna_blast_analyze/BA.py b/rna_blast_analyze/BA.py
@@ -19,6 +19,9 @@
 
 logger.addHandler(ch)
 
+with open(os.path.join(os.path.dirname(os.path.dirname(__file__)), 'VERSION'), 'r') as o:
+    version = o.read().strip()
+
 
 class ParseFilter(argparse.Action):
     def __call__(self, parser, args, values, option_string=None):
@@ -154,7 +157,7 @@ def f_parser():
     misc_group.add_argument(
         '--version',
         action='version',
-        version='%(prog)s 0.0.5'
+        version='%(prog)s ' + version
     )
     parameters_group.add_argument(
         '--config_file',

diff --git a/setup.py b/setup.py
@@ -3,6 +3,10 @@
 # package_data
 # - directly related to code
 # - 3rd_party_data as data_files not working to expectations
+
+with open('VERSION', 'r') as o:
+    version = o.read().strip()
+
 package_data = {
     'rna_blast_analyze': [
         'BR_core/config.txt',