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Releases: jlab/fold-grammars

additional fixes for bioconda distribution

18 Jul 08:38
219e31a
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  • flag glasgow-ext is no longer supported in OSX
  • seems like BusyBox v1.36.1's readlink does not have a -m option

Fix debian dependencies and avoid gcc use at runtime

15 Jul 18:02
0ee5347
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This release is "just" an update to fix minor issues with package distribution through Ubuntu Launchpad and bioconda.

Updated energy parameters to ViennaRNA 2.5.1

12 Jul 11:21
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  • underlying bellman's GAPc was updated such that
    • thermodynamic parameters where updated to be en par with ViennaRNA 2.5.1
    • mk_pf() and scale() repretitive computation is cached to speed up probability computations, thanks @fymue !

adapted energy parameter fix from ViennaRNA

28 Apr 21:32
80431b1
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  • fixing a bug with latest gcc version regarding definition of openParen and closeParen pre-definitions leading to segfaults for whatever input. Thanks Vincent von Schelm for bringing this to my attention!
  • raising a warning about potential errors in free energy computation when using macrostate and energy parameters that violate the assumption that dl_energy + dr_energy == ext_mismatch_energy (this was true for Turner1999, but is no longer in Turner2004). See: #26
  • using a non deprecated method for number rounding, thus preventing multiple warnings to bug the user in front ends
  • raising a warning about potentially wrong energy computation if a) in alignment mode and b) in window mode. See: jlab/gapc#79

stable release for bioconda

30 May 12:16
0b3c311
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Merge pull request #7 from jlab/fix_stefanstyletests

Fix stefanstyletests