From e31c8ea57a0b32c1688b1fcbf84db9f30a93ab94 Mon Sep 17 00:00:00 2001
From: Celine Mercier <celine.mercier@metabarcoding.org>
Date: Sun, 7 Oct 2018 19:11:36 +0200
Subject: [PATCH] New command: obi history to print DMS or view history in
 bash, dot or ascii formats

---
 python/obitools3/commands/history.pyx | 57 +++++++++++++++++++++++++++
 1 file changed, 57 insertions(+)
 create mode 100644 python/obitools3/commands/history.pyx

diff --git a/python/obitools3/commands/history.pyx b/python/obitools3/commands/history.pyx
new file mode 100644
index 0000000..6a65734
--- /dev/null
+++ b/python/obitools3/commands/history.pyx
@@ -0,0 +1,57 @@
+#cython: language_level=3
+
+from obitools3.apps.optiongroups import addMinimalInputOption
+from obitools3.uri.decode import open_uri
+from obitools3.dms import DMS
+from obitools3.dms.view import View
+from obitools3.utils cimport bytes2str
+
+ 
+__title__="Command line histories and view history graphs"
+ 
+
+def addOptions(parser):
+
+    addMinimalInputOption(parser)
+ 
+    group=parser.add_argument_group('obi history specific options')
+ 
+    group.add_argument('--bash', '-b',
+                     action="store_const", dest="history:format",
+                     default="bash",
+                     const="bash",
+                     help="Print history in bash format")
+
+    group.add_argument('--dot', '-d',
+                     action="store_const", dest="history:format",
+                     default="bash",
+                     const="dot",
+                     help="Print history in DOT format (default: bash format)")
+
+    group.add_argument('--ascii', '-a',
+                     action="store_const", dest="history:format",
+                     default="bash",
+                     const="ascii",
+                     help="Print history in ASCII format (only for views; default: bash format)")
+ 
+
+def run(config):
+    
+    cdef object entries
+    
+    DMS.obi_atexit()
+    
+    input = open_uri(config['obi']['inputURI'])
+       
+    entries = input[1]
+    
+    if config['history']['format'] == "bash" :
+        print(bytes2str(entries.bash_history))
+    elif config['history']['format'] == "dot" :
+        print(bytes2str(entries.dot_history_graph))
+    elif config['history']['format'] == "ascii" :
+        if isinstance(entries, View):
+            print(bytes2str(entries.ascii_history_graph))
+        else:
+            raise Exception("ASCII history only available for views")
+