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martin-raden committed Mar 2, 2020
1 parent 72ef382 commit 59a12d6
Showing 1 changed file with 27 additions and 27 deletions.
54 changes: 27 additions & 27 deletions ChangeLog
Original file line number Diff line number Diff line change
Expand Up @@ -41,33 +41,33 @@
* NumericParameter :
* CharParameter :
+ isSet() : checks if value and default differ
+ qId|tId : id (prefix) for sequence naming
+ acc|accW|accL : meta for q|t*
+ intLenMax|intLoopMax : meta for q|t*
* resetParamDefault() :
+ overwrite value (since set to default in constructor)
+ validate_region|shape|shapeMethod|shapeConversion : generic checks for q|t
+ validate_seedRange : generic checks for q|t
+ validate_numberArgumentExcludeRange() : generic check excluding a range
+ validate_id() : checks for line breaks in q|tId
* parseSequences() :
* parseSequencesFasta() :
+ idPrefix handling
- obsolete functions
- validate_query|target
- validate_qAccW|L|Constr
- validate_q|tRegion|Shape|ShapeMethod|ShapeConversion
- validate_seedQ|TRange
* constructor() :
+ extended default reset for new arguments
* q|tAcc* arguments now hidden
* validation calls refactored
+ model|acc|intLenMax|intLoopMax now general arguments
* parse() :
+ additional checks for meta arguments with setup of q|t variables
+ usage of .isSet() where appropriate
+ check that outSep is not within id prefix in outMode=C
+ ensure intLenMax >= seedBP
+ qId|tId : id (prefix) for sequence naming
+ acc|accW|accL : meta for q|t*
+ intLenMax|intLoopMax : meta for q|t*
* resetParamDefault() :
+ overwrite value (since set to default in constructor)
+ validate_region|shape|shapeMethod|shapeConversion : generic checks for q|t
+ validate_seedRange : generic checks for q|t
+ validate_numberArgumentExcludeRange() : generic check excluding a range
+ validate_id() : checks for line breaks in q|tId
* parseSequences() :
* parseSequencesFasta() :
+ idPrefix handling
- obsolete functions
- validate_query|target
- validate_qAccW|L|Constr
- validate_q|tRegion|Shape|ShapeMethod|ShapeConversion
- validate_seedQ|TRange
* constructor() :
+ extended default reset for new arguments
* q|tAcc* arguments now hidden
* validation calls refactored
+ model|acc|intLenMax|intLoopMax now general arguments
* parse() :
+ additional checks for meta arguments with setup of q|t variables
+ usage of .isSet() where appropriate
+ check that outSep is not within id prefix in outMode=C
+ ensure intLenMax >= seedBP

200207 Martin Raden + Fabio Gutmann
+ python/CopomuS.py : Compensatory mutation selector to support interaction
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