git://source.jalview.org
/
jalview.git
/ history
commit
grep
author
committer
pickaxe
?
search:
re
summary
|
shortlog
|
log
|
commit
|
commitdiff
|
tree
first ⋅ prev ⋅
next
JAL-161 JAL-4173 allow trees embedded as NH tags in stockholm to be loaded as trees...
[jalview.git]
/
src
/
jalview
/
ws
/
2023-03-24
James Procter
JAL-4158 first attempt at stashing colours for contact...
tree
|
commitdiff
2023-03-20
James Procter
JAL-4134 override default hasTree so PAE tree is saved!
tree
|
commitdiff
2023-03-17
James Procter
JAL-4134 store/restore Newick tree for PAE annotation row
tree
|
commitdiff
2023-03-15
James Procter
JAL-4091 JAL-629 ‘Add Reference Annotations’ takes...
tree
|
commitdiff
2023-03-15
James Procter
JAL-4134 JAL-3855 store/restore groups, tree and thresh...
tree
|
commitdiff
2023-03-08
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
tree
|
commitdiff
2023-03-06
Ben Soares
JAL-629 Fix null AlignPanel. More descriptive label...
tree
|
commitdiff
2023-03-02
Ben Soares
JAL-629 slight tidy up
tree
|
commitdiff
2023-03-02
Ben Soares
JAL-629 Removal of unnecessary methods. Set pLTTD tempf...
tree
|
commitdiff
2023-03-02
Ben Soares
JAL-629 Some refactoring to allow more flexible use...
tree
|
commitdiff
2023-02-27
Ben Soares
JAL-629 add AF examples for FER1_SPIOL. Link and displa...
tree
|
commitdiff
2023-02-27
James Procter
JAL-4134 allow tree groups to be stored/recovered on...
tree
|
commitdiff
2023-02-27
Ben Soares
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
|
commitdiff
2023-02-27
Ben Soares
JAL-629 removed debug prints. added .cif. added some...
tree
|
commitdiff
2023-02-24
James Procter
JAL-629 JAL-4124 JAL-3855 test to check we can import...
tree
|
commitdiff
2023-02-24
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
features/JAL-3858_PAEsInProjects
tree
|
commitdiff
2023-02-23
Ben Soares
JAL-629 fix a PAEMatrix casting error
tree
|
commitdiff
2023-02-22
James Procter
JAL-3858 persist PAE matrix (only so far) as serialised...
tree
|
commitdiff
2023-02-22
James Procter
JAL-3858 construct a PAE direct from float array
tree
|
commitdiff
2023-02-22
Ben Soares
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
|
commitdiff
2023-02-22
James Procter
JAL-4027 JAL-3858 rename CUSTOM_RENDERER to CONTACT_MAT...
tree
|
commitdiff
2023-02-16
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
tree
|
commitdiff
2023-02-03
Ben Soares
JAL-629 Fasta sequence id reading whitespace fix. Flexi...
tree
|
commitdiff
2023-02-03
James Procter
JAL-1551 remove temp file in src
tree
|
commitdiff
2023-01-24
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-2349_JAL...
tree
|
commitdiff
2023-01-24
James Procter
Merge branch 'develop' (JAL-4102 2.11.2.6 patch release...
features/r2_11_2_alphafold/JAL-2349_JAL-3855
tree
|
commitdiff
2023-01-23
Ben Soares
JAL-629 Attempts to add PAE to structure. --headless...
tree
|
commitdiff
2023-01-20
Jim Procter
JAL-2353 primary ref candidates that should be promoted...
patch/Release_2_11_2_6_Branch
tree
|
commitdiff
2023-01-11
Ben Soares
JAL-629 refactoring TFType. Remove i18n identification...
tree
|
commitdiff
2022-12-08
Ben Soares
JAL-629 Allow attachment of pAE file to a particular...
tree
|
commitdiff
2022-12-05
Ben Soares
JAL-629 implementation of --tempfac options
tree
|
commitdiff
2022-11-30
Ben Soares
JAL-4101 Updated DEFAULT_RFAM_BASEURL
tree
|
commitdiff
2022-11-30
Jim Procter
JAL-2353 patch for Ensembl refs from uniprot - needs...
tree
|
commitdiff
2022-11-29
Ben Soares
JAL-4101 Updated DEFAULT_RFAM_BASEURL
tree
|
commitdiff
2022-10-30
Jim Procter
JAL-2353 patch for Ensembl refs from uniprot - needs...
tree
|
commitdiff
2022-10-28
Jim Procter
JAL-2349 allow contact matrix to provide labels for...
tree
|
commitdiff
2022-10-20
Jim Procter
JAL-2349 JAL-3855 ContactListI.getPosition() to recover...
tree
|
commitdiff
2022-10-17
Jim Procter
JAL-3855 bump AF version to 3 - keep contact renderer...
tree
|
commitdiff
2022-10-17
Jim Procter
JAL-3855 report download errors as errors!
tree
|
commitdiff
2022-10-17
Jim Procter
JAL-2349 JAL-3855 Integrate pAE retrieval in StructureF...
tree
|
commitdiff
2022-10-15
Jim Procter
JAL-3855 import pAE when StructureSelectionManager...
tree
|
commitdiff
2022-10-15
Jim Procter
JAL-3855 pAE v2 import
tree
|
commitdiff
2022-10-14
Jim Procter
JAL-3855 refactor the pAE retrieval code so it can...
tree
|
commitdiff
2022-10-14
Jim Procter
Merge branch 'features/JAL-3895_alphafoldcolours' into...
tree
|
commitdiff
2022-10-11
Jim Procter
JAL-4073 fix PEBCAK failure
tree
|
commitdiff
2022-10-06
Jim Procter
stable url for PFAM retrieval via interpro api :) JAL...
tree
|
commitdiff
2022-10-06
Jim Procter
JAL-1551 formatting
tree
|
commitdiff
2022-10-06
Jim Procter
JAL-4073 Pfam retrieval now works via a template includ...
tree
|
commitdiff
2022-06-24
Jim Procter
JAL-2349 JAL-3855 formatting
tree
|
commitdiff
2022-06-24
Jim Procter
JAL-3855 update EBI Alphafold barcoded URL generation...
tree
|
commitdiff
2022-06-24
Jim Procter
JAL-2349 JAL-3855 resolve sequence position for contact...
tree
|
commitdiff
2022-06-10
Jim Procter
Merge branch 'features/r2_11_2_alphafold/JAL-2349_JAL...
tree
|
commitdiff
2022-03-08
Jim Procter
JAL-3746 apply copyright to source
tree
|
commitdiff
2022-03-08
Jim Procter
JAL-3438 spotless for 2.11.2.0
tree
|
commitdiff
2022-03-04
Jim Procter
JAL-3746 JAL-3813 NOIDENTIFIERSSERVICE preference disab...
tree
|
commitdiff
2022-02-17
Jim Procter
JAL-3959 add key retrieval urls that support CORS neede...
tree
|
commitdiff
2022-02-16
Jim Procter
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
|
commitdiff
2022-02-11
Jim Procter
JAL-3949 - refactor logging from jalview.bin.Cache...
tree
|
commitdiff
2022-02-11
Ben Soares
JAL-3949 Complete new abstracted logging framework...
tree
|
commitdiff
2022-01-28
Jim Procter
Merge branch 'merge/develop_JAL-3725' into develop
tree
|
commitdiff
2022-01-26
gmungoc
JAL-3725 exclude stop codon from CDS-to-protein mapping
tree
|
commitdiff
2021-12-13
Jim Procter
JAL-3855 JAL-3829 don’t need to make up alphafold model...
tree
|
commitdiff
2021-12-08
Jim Procter
JAL-3929 URLencode pdbid to remove problematic characte...
tree
|
commitdiff
2021-10-01
gmungoc
JAL-3725 exclude stop codon from CDS-to-protein mapping
tree
|
commitdiff
2021-09-29
Jim Procter
JAL-3884 squish alarming but harmless errors when unipr...
tree
|
commitdiff
2021-09-29
Jim Procter
JAL-3881 split on any nonalphanumeric symbol (plus...
tree
|
commitdiff
2021-09-23
Jim Procter
JAL-3692 JAL-3861 remove extra call to .parse() so...
tree
|
commitdiff
2021-09-21
Ben Soares
JAL-3691 automatic insertion of Locale.ROOT to toUpperC...
tree
|
commitdiff
2021-09-16
Ben Soares
JAL-3739 (combined) commits from feature/JAL-3739_useFo...
tree
|
commitdiff
2021-09-15
Ben Soares
Merge branch 'develop' into merge/develop_ben2
tree
|
commitdiff
2021-09-14
Jim Procter
JAL-3829 JAL-3855 ignore case when detecting alphafold ID
tree
|
commitdiff
2021-09-14
Jim Procter
JAL-3829 3d-beacons doesn’t work as a sequence source...
tree
|
commitdiff
2021-08-30
Jim Procter
JAL-3829 generalised Alphafold retrieval mechanism...
tree
|
commitdiff
2021-08-30
Jim Procter
JAL-3863 mark first accession retrieved from Uniprot...
tree
|
commitdiff
2021-08-30
Jim Procter
Merge branch 'feature/JAL-3855_ebi_alphafold_import...
tree
|
commitdiff
2021-08-30
arngucci
JAL-3829_spike minor changes
tree
|
commitdiff
2021-08-30
Jim Procter
JAL-3829 forgot to add in the dummy 3d-beacons db proxy
tree
|
commitdiff
2021-08-20
Jim Procter
JAL-3855 JAL-2349 (d0h) class for holding and accessing...
tree
|
commitdiff
2021-08-18
Jim Procter
JAL-3855 EBI Alphafold database fetcher
tree
|
commitdiff
2021-08-18
Jim Procter
JAL-3855 JAL-2349 download PAE matrix along with alpha...
tree
|
commitdiff
2021-08-13
Jim Procter
Merge branch 'feature/JAL-3855_ebi_alphafold_import...
tree
|
commitdiff
2021-08-11
Jim Procter
Merge branch 'features/JAL-2349_matrixvis' into feature...
tree
|
commitdiff
2021-07-27
Jim Procter
JAL-3855 ALPHAFOLD database source based on the PDB...
tree
|
commitdiff
2021-04-06
Jim Procter
JAL-3832 dummy 3d-beacons database client and code...
tree
|
commitdiff
2021-02-17
Jim Procter
Merge branch 'feature/JAL-3692enaEndpoint' into patch...
tree
|
commitdiff
2021-02-05
Jim Procter
JAL-3813 NOIDENTIFIERSSERVICE preference disables jalvi...
tree
|
commitdiff
2020-11-06
Ben Soares
JAL-3628 Changed other calls to renameTo to use BackupF...
tree
|
commitdiff
2020-10-28
gmungoc
JAL-3725 exclude stop codon from CDS-to-protein mapping
tree
|
commitdiff
2020-09-16
Jim Procter
JAL-3748 recover complement alignment from complement...
tree
|
commitdiff
2020-08-05
Jim Procter
Merge branch 'patch/JAL-3692enaEndpointFlatfile' into...
tree
|
commitdiff
2020-08-05
gmungoc
JAL-3692 parse multiline feature qualifiers and escaped...
tree
|
commitdiff
2020-08-05
gmungoc
JAL-3692 parse multiline feature qualifiers and escaped...
tree
|
commitdiff
2020-08-05
Jim Procter
Merge branch 'merge/JAL-3628+JAL-3608+JAL-3609+JAL...
tree
|
commitdiff
2020-08-03
gmungoc
JAL-3692 refactor/complete parsing, more unit test...
tree
|
commitdiff
2020-08-03
gmungoc
JAL-3692 EMBL flatfile fetcher / parser (todo: CDS...
tree
|
commitdiff
2020-07-27
gmungoc
JAL-2656 JAL-3615 check response headers to test for...
tree
|
commitdiff
2020-07-27
gmungoc
JAL-3615 used gzip endpoints for Pfam and Rfam
tree
|
commitdiff
2020-07-27
gmungoc
JAL-3692 refactor/complete parsing, more unit test...
tree
|
commitdiff
2020-07-21
gmungoc
JAL-3692 EMBL flatfile fetcher / parser (todo: CDS...
tree
|
commitdiff
2020-07-02
gmungoc
JAL-2656 JAL-3615 check response headers to test for...
tree
|
commitdiff
next