Repository 'blast2html'
hg clone https://toolshed.g2.bx.psu.edu/repos/jankanis/blast2html

Changesets
Repository metadata is associated with this change set.
Add links to github and bitbucket
128:82b8c9722996
127:532aa200dbe9
b'Jan'
2015-07-23
Version 1.0: Include documentation, license, etc. No code changes Update README, put appropriate text in the <help> section, add a <citation> tag.
127:532aa200dbe9
126:0fa962dd83b4
b'Jan'
2015-07-23
Repository metadata is associated with this change set.
Add README and license
126:0fa962dd83b4
125:8205546ba86c
b'Jan'
2015-07-22
merge 844d121d0485 so Tool Shed doesn't see multiple heads
125:8205546ba86c
124:6719353162b0
b'Jan'
2015-07-07
change sanitize_all_html warning style
124:6719353162b0
123:720efb818f1b
b'Jan'
2014-08-11
really fix python 2.6 array type code issue
123:720efb818f1b
122:5f104d05aa23
b'Jan'
2014-07-31
fix python 2.6 issue with array type codes
122:5f104d05aa23
120:2729c2326235
b'Jan'
2014-07-31
Repository metadata is associated with this change set.
close branch
121:844d121d0485
87:62aac637dd6c
b'Jan'
2014-07-31
Repository metadata is associated with this change set.
Fix for Rikilt issue 13 Hit e-value and identity% should be taken from the hsp with the highest bit score. Previously each of these values was calculated independently. Also use arrays for cover calculation instead of python lists and refactor the hit_info() code a bit.
120:2729c2326235
119:591dc9c24824
b'Jan'
2014-07-31
tentative fix for Rikilt issue 10: don't sort hits ourselves but use blastxml ordering
119:591dc9c24824
118:7f3f8c10f44b
b'Jan'
2014-07-31
fix for Rikilt issues 8, 11, 12, 14
118:7f3f8c10f44b
117:8ae714069687
b'Jan'
2014-07-31
increase version to 0.0.14
117:8ae714069687
116:f5066973029a
b'Jan'
2014-07-31
Repository metadata is associated with this change set.
refactor
116:f5066973029a
115:0c2a03f9740b
b'Jan'
2014-07-14
make external gene bank name configurable
115:0c2a03f9740b
114:4f0ed3b5ae46
b'Jan'
2014-07-14
Repository metadata is associated with this change set.
update test results
114:4f0ed3b5ae46
113:5d3840a1635e
b'Jan'
2014-07-09
adjust header size
113:5d3840a1635e
112:4c154760deba
b'Jan'
2014-07-09
create document-wide h1 header, put other headers one size down
112:4c154760deba
111:7aa28753d7b3
b'Jan'
2014-07-09
create document-wide h1 header, put other headers one size down
111:7aa28753d7b3
110:e17aae23cc1c
b'Jan'
2014-07-09
report query parameters for each query
110:e17aae23cc1c
109:ea3bc0b9a3d9
b'Jan'
2014-07-09
fix (again) output encoding
109:ea3bc0b9a3d9
108:1faac255ae3c
b'Jan'
2014-07-08
update version to 0.0.12
108:1faac255ae3c
107:ee2b105d772a
b'Jan'
2014-07-08
Repository metadata is associated with this change set.
minor fix
107:ee2b105d772a
106:ed71448ee154
b'Jan'
2014-07-07
add new test files
106:ed71448ee154
105:b3b5ee557170
b'Jan'
2014-07-07
update test
105:b3b5ee557170
104:a22c909c9b57
b'Jan'
2014-07-07
stream output
104:a22c909c9b57
103:86bcf17f50ef
b'Jan'
2014-07-07
improve warning messages
103:86bcf17f50ef
102:87c5402e0ba8
b'Jan'
2014-07-01
fix error
102:87c5402e0ba8
101:5bfaa3ee1f27
b'Jan'
2014-07-01
better warning message
101:5bfaa3ee1f27
100:be7c94e29cd8
b'Jan'
2014-07-01
add --db-config-dir switch to wrapper; update version number
100:be7c94e29cd8
99:8f02008a5f20
b'Jan'
2014-07-01
Repository metadata is associated with this change set.
look at all blast*.loc files; python2.6 compat fix
99:8f02008a5f20
98:e780606b7c25
b'Jan'
2014-07-01
test new command line parameters, fix small bug
98:e780606b7c25
97:8b3c5d334a84
b'Jan'
2014-06-30
update tests
97:8b3c5d334a84
96:02b795b784e1
b'Jan'
2014-06-30
fix bug; add comments
96:02b795b784e1
95:4378d11f0ed7
b'Jan'
2014-06-30
implement configurable gene bank links
95:4378d11f0ed7
94:df9fd5f35967
b'Jan'
2014-06-30
Backed out broken changeset 15b289ffdf2b
94:df9fd5f35967
93:15b289ffdf2b
b'Jan'
2014-06-24
try to install lxml within setup_virtualenv (probably fails)
93:15b289ffdf2b
92:dede77ad7069
b'Jan'
2014-06-24
update to latest zlib, remove workaround for missing zlib env variable
92:dede77ad7069
91:20639b08d781
b'Jan'
2014-06-24
fix LD_LIBRARY_PATH
91:20639b08d781
90:c174a815da9c
b'Jan'
2014-06-24
add LIBRARY_PATH variable
90:c174a815da9c
89:8a712d393559
b'Jan'
2014-06-24
add zlib dependency
89:8a712d393559
88:24deecb59ce9
b'Jan'
2014-06-24
merge py2.6 branch
88:24deecb59ce9
84:4340432b7191
b'Jan'
2014-06-24
(attempt to) get lxml install working
87:62aac637dd6c
86:463744384507
b'Jan'
2014-06-24
add missing dependencies
86:463744384507
85:2edb77030a9e
b'Jan'
2014-06-24
re-include backed out revisions and update version numbers
85:2edb77030a9e
84:4340432b7191
b'Jan'
2014-06-24
Repository metadata is associated with this change set.
Backed out changesets 0b5819dc1478 and 3338571b44cd to create new release version
84:4340432b7191
83:0b5819dc1478
b'Jan'
2014-06-24
fix lxml version
83:0b5819dc1478
82:3338571b44cd
b'Jan'
2014-06-23
first attempt at running on python 2.6
82:3338571b44cd
81:40ce2043006a
b'Jan'
2014-06-23
Repository metadata is associated with this change set.
merge py2.6 branch
81:40ce2043006a
72:6ecbfebb9dd9
b'Jan'
2014-06-19
Close branch
80:f1791df1478c
79:9fb1a7d67317
b'Jan'
2014-06-19
remove unneeded encoding parameter
79:9fb1a7d67317
78:c0804e6443c6
b'Jan'
2014-06-19
comment
78:c0804e6443c6
77:05500bdd7376
b'Jan'
2014-06-19
update test output
77:05500bdd7376
76:7d0d46168fd5
b'Jan'
2014-06-19
Format all numbers in a predictable way
76:7d0d46168fd5
75:4d2c25baf5a3
b'Jan'
2014-06-19
Fix rounding errors
75:4d2c25baf5a3
74:03e044b5bcc2
b'Jan'
2014-06-18
fix escaping of javascript literals
74:03e044b5bcc2
73:67b1a319c6dc
b'Jan'
2014-06-18
First go at 2.6 compatibility The tests are running without errors, but they don't produce the same output as python3
73:67b1a319c6dc
72:6ecbfebb9dd9
b'Jan'
2014-06-18
doc changes
72:6ecbfebb9dd9
71:371cd585e459
b'Jan'
2014-06-18
refactor
71:371cd585e459
70:0ef071bba164
b'Jan'
2014-06-18
Modify test data to include a negative frame sequence that is split in multiple lines
70:0ef071bba164
69:0c4ac210068b
b'Jan'
2014-06-18
handle reverse matches
69:0c4ac210068b
68:fa8a93bdefd7
b'Jan'
2014-06-18
fix bug in calculations of alignment end
68:fa8a93bdefd7
67:19c48f2ec775
b'Jan'
2014-06-18
wrap alignments if they are too long
67:19c48f2ec775
66:e3dd39906eef
b'Jan'
2014-06-17
fix input format
66:e3dd39906eef
65:c546e759bf2a
b'Jan'
2014-06-04
depend on modified libxml2 that exports LD_LIBRARY_PATH
65:c546e759bf2a
64:b68c04bf6912
b'Jan'
2014-06-04
Repository metadata is associated with this change set.
work around missing ld library path for libxml
64:b68c04bf6912
63:fb823a59918f
b'Jan'
2014-06-03
depend on fixed python3
63:fb823a59918f
62:b90441d0fe7d
b'Jan'
2014-05-28
Undo including $ENV[PYTHONPATH] in PYTHONPATH If $ENV[PYTHONPATH] is empty, Galaxy replaces it with $PYTHONPATH instead of an empty string, which introduces python 2 code in the python 3 path.
62:b90441d0fe7d
61:c1dba49b72ef
b'Jan'
2014-05-28
bump version
61:c1dba49b72ef
60:cd31e2fb5f22
b'Jan'
2014-05-28
Repository metadata is associated with this change set.
depend on latest python3, add $ENV[PYTHONPATH] to PYTHONPATH
60:cd31e2fb5f22
59:f611cf649c90
b'Jan'
2014-05-28
update tests
59:f611cf649c90
58:39df29f647e8
b'Jan'
2014-05-27
set other environment variables as well
58:39df29f647e8
57:159989f6bfa6
b'Jan'
2014-05-27
depend on new python3; set LD_LIBRARY_PATH
57:159989f6bfa6
56:d2fb88c1e866
b'Jan'
2014-05-26
Repository metadata is associated with this change set.
fix interpreter setting
56:d2fb88c1e866
55:c0c4f52ca313
b'Jan'
2014-05-26
fix depended repository name
55:c0c4f52ca313
54:6d96d48a10f8
b'Jan'
2014-05-26
add changeset revision in xml
54:6d96d48a10f8
53:4217bb9cf1d3
b'Jan'
2014-05-26
depend on python 3; fix internal links with multiple iterations
53:4217bb9cf1d3
52:d6c7b5de2833
b'Jan'
2014-05-26
Repository metadata is associated with this change set.
minor fix
52:d6c7b5de2833
51:b15a20c2372a
b'Jan'
2014-05-21
fix python 2 compatibility
51:b15a20c2372a
50:bfc82a8aa3c9
b'Jan'
2014-05-21
unicodify python sources
50:bfc82a8aa3c9
49:85f757f4fcd5
b'Jan'
2014-05-21
debug action
49:85f757f4fcd5
48:49de6a204554
b'Jan'
2014-05-20
fix prior_installation_required flag
48:49de6a204554
47:2015f1af96b4
b'Jan'
2014-05-20
add prior_installation_required flag
47:2015f1af96b4
46:518580263e96
b'Jan'
2014-05-20
change tool_dependencies.xml
46:518580263e96
45:4497ce4127b4
b'Jan'
2014-05-20
move dependency on blast_datatypes back to repository_dependencies.xml
45:4497ce4127b4
44:7d3f399d0d98
b'Jan'
2014-05-20
Repository metadata is associated with this change set.
add dependency on cython
44:7d3f399d0d98
43:0d5d90291ce2
b'Jan'
2014-05-20
Repository metadata is associated with this change set.
another attempt at getting dependencies right
43:0d5d90291ce2
42:1d49bce1e4bb
b'Jan'
2014-05-20
Repository metadata is associated with this change set.
update version
42:1d49bce1e4bb
41:637f96ffb9a4
b'Jan'
2014-05-19
Repository metadata is associated with this change set.
more dependency updates, now including the python package dependencies
41:637f96ffb9a4
40:1a51ef0034d6
b'Jan'
2014-05-19
further update dependency information, hope it works now
40:1a51ef0034d6
39:3173dfa849cc
b'Jan'
2014-05-19
Repository metadata is associated with this change set.
update dependency
39:3173dfa849cc
38:91008923c402
b'Jan'
2014-05-19
add repository dependency; add <stdio> tag; update version
38:91008923c402
37:36730fda2f54
b'Jan'
2014-05-19
Repository metadata is associated with this change set.
add argparse dependency for python <2.7 and update version
37:36730fda2f54
36:0f015cb32b93
b'Jan'
2014-05-15
Repository metadata is associated with this change set.
add argparse dependency for python <2.7
36:0f015cb32b93
35:2b23b4a4d88e
b'Jan'
2014-05-15
fix tool xml file name
35:2b23b4a4d88e
34:5d7a82f49485
b'Jan'
2014-05-15
update version
34:5d7a82f49485
33:3bb5da68305e
b'Jan'
2014-05-15
add test update script, add url to github page
33:3bb5da68305e
32:ce8f29efc0a1
b'Jan'
2014-05-15
fix tests
32:ce8f29efc0a1
31:344cd76f6fd2
b'Jan'
2014-05-15
rename NCBI reference example
31:344cd76f6fd2
30:2143f62809d0
b'Jan'
2014-05-15
remove unneeded files
30:2143f62809d0
29:420d0508dcd6
b'Jan'
2014-05-15
reorganise to match galaxy tool shed layout
29:420d0508dcd6
28:8a8c0c71b5d1
b'Jan'
2014-05-15
Repository metadata is associated with this change set.
add blast2html.xml config setting
28:8a8c0c71b5d1
27:4e6ac737ba17
b'Jan'
2014-05-15
improve the galaxy html stripping warning; make sure the tool can find the template from within galaxy
27:4e6ac737ba17
26:eee23a36c582
b'Jan'
2014-05-15
add a warning if galaxy strips the html header/stylesheet
26:eee23a36c582
25:b77934f57522
b'Jan'
2014-05-15
add more example xmls, move them to a subdirectory
25:b77934f57522
24:c8347745bbad
b'Jan'
2014-05-15
use Iteration_message tag; also work with unexpected Hit_id values
24:c8347745bbad
23:6995a6f34f3f
b'Jan'
2014-05-15
fix sectioning, add footer
23:6995a6f34f3f
22:efce16c98650
b'Jan'
2014-05-15
rename blast2html
22:efce16c98650
21:9596fea636bb
b'Jan'
2014-05-15
style changes
21:9596fea636bb
20:53cd304c5f26
b'Jan'
2014-05-15
Add index for multiple results; fix layout of query ruler for edge case The query ruler did not layout nicely if the last segment was too short to contain the text. For very short last segments the text is now displayed after the ruler.
20:53cd304c5f26
19:67ddcb807b7d
b'Jan'
2014-05-14
make it work with multiple queries
19:67ddcb807b7d
18:4434ffab721a
b'Jan'
2014-05-13
add a parameter for the template
18:4434ffab721a
17:8e61627a87f1
b'Jan'
2014-05-13
make html more semantic
17:8e61627a87f1
16:db7e4ee3be03
b'Jan'
2014-05-13
fix validation, reindent
16:db7e4ee3be03
15:648b3b7437da
b'Jan'
2014-05-13
minor update
15:648b3b7437da
14:0b33898bba45
b'Jan'
2014-05-12
small bugfixes (one for python 3.4)
14:0b33898bba45
13:c2d63adb83db
b'Jan'
2014-05-12
renamed files
13:c2d63adb83db
12:a459c754cdb5
b'Jan'
2014-05-12
add links, refactor, proper commandline arguments
12:a459c754cdb5
11:7660519f2dc9
b'Jan'
2014-05-12
proper layout for alignments, added some links
11:7660519f2dc9
10:2fbdf2eb27b4
b'Jan'
2014-05-12
All data is displayed now, still some formatting to do
10:2fbdf2eb27b4
9:bbdc8fb0de2b
b'Jan'
2014-05-09
fix descriptiontable width
9:bbdc8fb0de2b
8:beb83da5a6b7
b'Jan'
2014-05-08
div-ified graphics
8:beb83da5a6b7
7:9e7927673089
b'Jan'
2014-05-08
intermediate commit before converting some tables to divs
7:9e7927673089
6:d20ce91e1297
b'Jan'
2014-05-08
slight update
6:d20ce91e1297
5:1df2bfce5c24
b'Jan'
2014-05-07
first features are working, partial match table
5:1df2bfce5c24
4:34211f5b83fd
b'Jan'
2014-05-07
trim everything that can be without breaking the graphics summary
4:34211f5b83fd
3:9a8ac57e5680
b'Jan'
2014-05-06
undo trimming that broke the graphics summary
3:9a8ac57e5680
2:f6cd51710678
b'Jan'
2014-05-06
more trimming down
2:f6cd51710678
1:ffe82516a83c
b'Jan'
2014-05-06
add trimmed down html example
1:ffe82516a83c
0:bad241dc701f
b'Jan'
2014-05-06
add example input blast xml and output html page
0:bad241dc701f
None
b'Jan'
2014-05-06