|
|
f43856b712
|
switch to version 3.0.1b12
v3.0.1b12
|
2021-09-08 10:56:55 +12:00 |
|
|
|
9e0c319806
|
Cython: fixed rewriting of column when rewriting a 1 element dict column
|
2021-09-08 10:54:23 +12:00 |
|
|
|
58b42cd977
|
C: views: now correctly parses view names containing '.' when cleaning
unfinished views. Closes #115
|
2021-09-08 10:52:42 +12:00 |
|
|
|
34de90bce6
|
ngsfilter: checks better if there is an associated sequencing quality
|
2021-09-08 10:30:11 +12:00 |
|
|
|
4be9f36f99
|
stats: fixed the computation of variance when it is equal to 0
|
2021-08-05 11:32:16 +12:00 |
|
|
|
f10e78ba3c
|
C: fixed the printing of view informations from a DMS (fixes #114)
|
2021-08-05 11:31:24 +12:00 |
|
|
|
88c8463ed7
|
Cython: taxonomy: improved logging
|
2021-08-05 11:29:20 +12:00 |
|
|
|
89168271ef
|
ecopcr: now accepting taxonomy from a different DMS than the reference
sequences
|
2021-08-05 11:28:57 +12:00 |
|
|
|
82d2642000
|
Switch to version 3.0.1b11
v3.0.1b11
|
2021-07-22 09:25:39 +12:00 |
|
|
|
99c1cd60d6
|
export: now exports header for tabular files by default and added option
to only export specific columns
|
2021-07-22 09:23:18 +12:00 |
|
|
|
ce7ae4ac55
|
export: fixed 'only' option printing one too many if printing header
|
2021-07-21 15:23:04 +12:00 |
|
|
|
0b4283bb58
|
cat: improved error handling
|
2021-07-21 15:22:08 +12:00 |
|
|
|
747f3efbb2
|
Improved taxonomy reading information display
|
2021-07-21 15:20:44 +12:00 |
|
|
|
6c1a3aff47
|
Fixed the handling of sample names that are numbers (forcing conversion)
|
2021-07-21 15:19:24 +12:00 |
|
|
|
e2932b05f2
|
Implements #108 export integer missing values as 0 for tables by default
|
2021-07-21 14:41:54 +12:00 |
|
|
|
32345b9ec4
|
Addresses #111
|
2021-07-19 15:55:25 +12:00 |
|
|
|
9334cf6cc6
|
import: improved genbank parser and switch to version 3.0.1.b10
v3.0.1b10
|
2021-06-17 08:42:01 +12:00 |
|
|
|
8ec13a294c
|
Switch to version 3.0.1b9
v3.0.1b9
|
2021-06-01 09:21:43 +12:00 |
|
|
|
3e45c34491
|
import: now imports and adds taxids for SILVA and RDP files, added
import of lists, fixed skipping of errors (was not overwriting), and
fixed --no-progress-bar option
|
2021-06-01 09:21:07 +12:00 |
|
|
|
c2f3d90dc1
|
build_ref_db: set default threshold to 0.99
|
2021-06-01 09:11:17 +12:00 |
|
|
|
6b732d11d3
|
align: fixed column URI parsing
|
2021-06-01 09:10:21 +12:00 |
|
|
|
9eb833a0af
|
typo fix
|
2021-06-01 09:09:16 +12:00 |
|
|
|
6b7b0e3bd1
|
cat: fixed the handling of dictionary columns
|
2021-06-01 09:06:13 +12:00 |
|
|
|
47691a8f58
|
count: added option to specify the count column
|
2021-06-01 09:05:14 +12:00 |
|
|
|
b908b581c8
|
clean: hid not implemented option
|
2021-06-01 09:04:22 +12:00 |
|
|
|
03c174fd7a
|
grep: added taxonomy check
|
2021-05-31 17:03:39 +12:00 |
|
|
|
2156588ff6
|
added TODO comment
|
2021-05-31 17:01:57 +12:00 |
|
|
|
6ff29c6a6a
|
Increased maximum line count to 10E12
|
2021-05-31 17:00:55 +12:00 |
|
|
|
51a3c68fb5
|
C: build_reference_db: fixed gcc warning/error
|
2021-05-31 16:59:17 +12:00 |
|
|
|
da91ffc2c7
|
URI decoding: fixed reading a taxonomy before any view
|
2021-05-31 16:57:20 +12:00 |
|
|
|
c884615522
|
obi stats: various fixes and improvements
|
2021-05-31 16:51:06 +12:00 |
|
|
|
cb53381863
|
ecotag: BEST_MATCH_TAXIDS now dereplicated (no repeated taxids in the
list) and switch to version 3.0.1b8
v3.0.1b8
|
2021-05-10 16:02:06 +12:00 |
|
|
|
72b3e5d872
|
switch to version 3.0.1b7
v3.0.1b7
|
2021-04-07 10:31:54 +12:00 |
|
|
|
238e9f70f3
|
alignpairedend: fixed bug that would cut out sequence ends when it
should not have
|
2021-04-07 10:31:12 +12:00 |
|
|
|
e099a16624
|
small fixes
|
2021-04-07 10:28:02 +12:00 |
|
|
|
847c9c816d
|
import: fixed count estimation for tabular files with header
|
2021-03-30 09:07:14 +13:00 |
|
|
|
6026129ca8
|
Fixes 101
|
2021-03-30 09:06:08 +13:00 |
|
|
|
169b6514b4
|
small doc fixes
|
2021-03-29 13:07:48 +13:00 |
|
|
|
89b0c48141
|
switch to version 3.0.1b6
v3.0.1b6
|
2021-03-29 11:18:44 +13:00 |
|
|
|
7c02782e3c
|
import/export: workaround for issue where flake8(?) reads '\t' as
'\'+'t' when parsing an option value
|
2021-03-29 11:18:19 +13:00 |
|
|
|
ecc4c2c78b
|
stats: improved the tabular display
|
2021-03-29 09:03:32 +13:00 |
|
|
|
f5413381fd
|
C: taxonomy: fixed a bug where some taxa would not be stored in the
merged index
|
2021-03-29 09:02:18 +13:00 |
|
|
|
3e93cfff7b
|
import: Columns are now rewritten in OBI_FLOAT if a value is > INT32_MAX
|
2021-03-29 09:00:52 +13:00 |
|
|
|
6d445fe3ad
|
switch to version 3.0.1b5
v3.0.1b5
|
2021-03-22 09:41:01 +13:00 |
|
|
|
824deb7e21
|
new command: obi rm: deletes any view (for now the user deleting a view
accepts that there will be missing information when running obi history
if other views came from the deleted view)
|
2021-03-18 09:17:06 +13:00 |
|
|
|
d579bb2749
|
switch to version 3.0.1b4
v3.0.1b4
|
2021-03-16 17:40:58 +13:00 |
|
|
|
10e5ebdbc0
|
ngsfilter: fixed critical bug where barcodes shorter than the forward
primer would be missed
|
2021-03-16 15:09:28 +13:00 |
|
|
|
8833110490
|
import: fixed the import of tabular files with no header
|
2021-03-16 09:15:48 +13:00 |
|
|
|
bd38449f2d
|
switch to version 3.0.1b3
v3.0.1b3
|
2021-03-15 16:50:17 +13:00 |
|
|
|
904823c827
|
uniq: now OK to use -m option even if only one unique key in information
to merge (e.g. one sample)
|
2021-03-15 16:48:22 +13:00 |
|
