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JAL-2616 HMM-Family alignments can now be filtered by residue counts
2017-08-30
TZVanaalten
JAL-2616 HMM-Family alignments can now be filtered...
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2017-08-30
TZVanaalten
JAL-2629 fix issue where HMM sequence would be longer...
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2017-08-30
TZVanaalten
JAL-2629 for multi-job hmmbuilds, group names are now...
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2017-08-28
tzvanaalten
JAL-2629 add option to set HMM Logo letter height to...
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2017-08-28
TZVanaalten
JAL-2629 add StringParameter
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2017-08-28
TZVanaalten
JAL-2629 fix HMMER validation fail due to checking...
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2017-08-28
TZVanaalten
JAL-2629 fix issue where HMM would not be added to...
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2017-08-28
TZVanaalten
JAL-2629 HMMER alignment background colour scheme is...
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2017-08-25
TZVanaalten
JAL-2629 hmmsearch now adds the E-value as an annotation
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2017-08-25
TZVanaalten
JAL-2629 hmmbuild runs on the alignment by default
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2017-08-25
TZVanaalten
JAl-2629 add new HMMER colour scheme class
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2017-08-25
TZVanaalten
JAL-2629 hmm annotation consensus characters are now...
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2017-08-25
TZVanaalten
JAL-2629 fix for hmmbuild failing due to whitespace...
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2017-08-25
TZVanaalten
Revert "jal-2629 fix for hmmbuild failing due to whitespace...
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2017-08-25
TZVanaalten
jal-2629 fix for hmmbuild failing due to whitespace...
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2017-08-25
TZVanaalten
JAL-2629 add multiple options for running hmmbuild...
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2017-08-25
TZVanaalten
JAL-2629 add adjustable parameters to hmmbuild
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2017-08-25
TZVanaalten
JAL-2629 adjust log parameter slightly and reduce granularity
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2017-08-25
TZVanaalten
JAL-2629 fix issue where Stockholm file would print...
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2017-08-25
TZVanaalten
JAL-2629 hmmsearch no longer throws an error if no...
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2017-08-25
TZVanaalten
JAL-2629 adjust parameter min and max to better suit...
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2017-08-25
TZVanaalten
JAL-2629 hmmsearch/build/align no longer run after...
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2017-08-25
TZVanaalten
JAL-2629 fix for NPE caused by incorrect initiation...
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2017-08-25
TZVanaalten
JAL-2629 hmmsearch now works for different databases
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2017-08-25
TZVanaalten
JAL-2629 add ability to add and select a DB for hmmsearch
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2017-08-25
TZVanaalten
JAL-2629 remove sequence and group HMMER options
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2017-08-25
TZVanaalten
JAL-2629 add basic parameter adjustment to hmmsearch...
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2017-08-23
tzvanaalten
JAL-2629 selected HMM is now a sequence, not a HMM
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2017-08-23
tzvanaalten
JAL-2629 fix for addHMMConsensus failing if no HMM...
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2017-08-23
tzvanaalten
JAL-2629 add logarithmic parameter for logarithmic...
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2017-08-22
TZVanaalten
JAL-2629 add hmmsearch class
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2017-08-21
TZVanaalten
Merge remote-tracking branch 'origin/releases/Release_2_10_2...
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2017-08-21
TZVanaalten
Merge remote-tracking branch 'origin/releases/Release_2_10_2...
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2017-08-21
TZVanaalten
JAL-2668 fix failing tests caused by HMMER-related...
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2017-08-18
TZVanaalten
Merge branch 'develop' into features/hmmer
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2017-08-18
TZVanaalten
JAL-2668 add tests for HMMER commands, annotation and io
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2017-08-18
TZVanaalten
JAL-2668 HMMFile export method moved to print method
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2017-08-17
TZVanaalten
JAL-2599 move fillSymbol method to HMFile
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2017-08-17
TZVanaalten
JAL-2599 some slight renaming of variables and methods
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2017-08-17
TZVanaalten
JAL-2629 add documentation to previous work
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2017-08-16
TZVanaalten
JAL-2599 HMM annotation now shows consensus characters...
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2017-08-16
TZVanaalten
JAL-2599 fix background frequency storage and correct...
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2017-08-16
TZVanaalten
JAL-2629 fix for hmmbuild not loading a HMM onto the...
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2017-08-16
TZVanaalten
JAL-2629 add hmmbuild validation check which also gets...
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2017-08-15
TZVanaalten
JAL-2629 prevent hmmbuild from running if there are...
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2017-08-15
TZVanaalten
JAL-2629 configure file chooser to select either a...
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2017-08-15
TZVanaalten
JAL-2629 add checks for executing hmmer commands as...
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2017-08-15
tzvanaalten
JAL-2629 fix file loading issues on Mac
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2017-08-15
TZVanaalten
JAL-2629 add HMMER version check
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2017-08-15
TZVanaalten
JAL-2629 selected HMM name now shown in HMMER menu
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2017-08-15
TZVanaalten
JAL-2629 exported HMMs are now named correctly
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2017-08-15
TZVanaalten
JAL-2629 fix uniquified sequence names appearing when...
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2017-08-15
TZVanaalten
JAL-2599 fix HMMER scheme not colouring inserts and...
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2017-08-15
TZVanaalten
JAL-2629 the HMMER tab is now disabled when HMMER is...
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2017-08-14
TZVanaalten
JAL-2629 remove annotation when exporting for hmmbuild
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2017-08-14
TZVanaalten
JAL-2629 remove gap padding, and now has option to...
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2017-08-14
TZVanaalten
JAL-2629 add insert sequence at method on alignment
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2017-08-14
TZVanaalten
JAL-2629 fix expected length error for hmmbuild by...
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2017-08-14
TZVanaalten
JAL-2629 add padding for .sto annotations to fix issues...
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2017-08-14
TZVanaalten
JAL-2629 remove redundant options from HMMER menu
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2017-08-14
TZVanaalten
JAL-2629 add validation for HMMER path
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2017-08-14
TZVanaalten
JAL-2629 fix incorrect gap insertions on HMM sequence
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2017-08-13
TZVanaalten
JAL-2629 fix issue where trim termini setting would...
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2017-08-13
TZVanaalten
JAL-2629 hmmalign can now be run from the sequence...
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2017-08-13
TZVanaalten
JAL-2629 add force alphabet type for HMMER commands
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2017-08-13
TZVanaalten
JAL-2629 fix issue where HMM sequences would be too...
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2017-08-13
TZVanaalten
JAL-2629 add HMMER tab in preferences menu
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2017-08-11
TZVanaalten
JAL-2629 delete unnecessary buffer files for hmmer...
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2017-08-11
TZVanaalten
JAL-2629 add ability to build a HMM from a group
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2017-08-11
TZVanaalten
JAL-2629 add ability to select HMMs
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2017-08-11
TZVanaalten
JAL-2599 HMMs can now be dropped onto the desktop
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2017-08-10
TZVanaalten
JAL-2629 hmmalign now correctly creates a new frame
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2017-08-10
tzvanaalten
Merge branch 'features/hmmer' of https://source.jalview...
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2017-08-10
tzvanaalten
JAL-2629 fix files permission issue on Mac
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2017-08-09
TZVanaalten
JAL-2599 fix for issue where info annot would not display
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2017-08-09
tzvanaalten
JAL-2599 fix for issue where info annot would not display
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2017-08-09
TZVanaalten
JAL-2599 add uniref 50 hmm example
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2017-08-09
TZVanaalten
JAL-2629 buffers are now temporary files
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2017-08-09
TZVanaalten
JAL-2629 removed unnecessary exception throws from...
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2017-08-09
TZVanaalten
JAL-2629 disable AAFrequencyTest compilation error
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2017-08-08
TZVanaalten
JAL-2616 fix allowing clan sorting to work
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2017-08-08
TZVanaalten
JAL-2599 fix for index issue on node lookup
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2017-08-08
TZVanaalten
JAL-2629 add ability to select hmmer binaries folder
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2017-08-07
TZVanaalten
JAL-2629 fixed hmmalign failing due to differing sequence...
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2017-08-07
TZVanaalten
JAL-2629 current hmmer commands are now executed in...
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2017-08-04
TZVanaalten
JAL-2599 fixed information annotation buttons not working
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2017-08-04
TZVanaalten
JAL-2629 hmmbuild now runs on alignments of different...
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2017-08-04
TZVanaalten
JAL-2629 multiple HMMs can now be dropped onto an alignment
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2017-08-02
TZVanaalten
JAL-2599 fix for HMM logo not normalising correctly
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2017-08-02
TZVanaalten
JAL-2599 fix issue where parser exported map annotation...
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2017-08-02
TZVanaalten
JAL-2599 fix for information annotation buttons
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2017-07-31
TZVanaalten
JAL-2629 add hmmalign command
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2017-07-27
TZVanaalten
JAL-2629 implement hmmbuild
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2017-07-27
TZVanaalten
JAL-2629 moved HMM storage location to placeholder...
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2017-07-26
TZVanaalten
JAL-2629 HMMs now map to reference annotation if exists
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2017-07-25
TZVanaalten
JAL-2629 add non-functional HMMER menu
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2017-07-25
TZVanaalten
JAL-2616 add ability to perform random alignments within...
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2017-07-24
tzvanaalten
JAL-2616 add placeholder sequence for HMM, does not...
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2017-07-24
tzvanaalten
JAL-2616 add ability to change location of family and...
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2017-07-24
tzvanaalten
JAL-2599 add a couple of test files not included in...
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