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e2932b05f2
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Implements #108 export integer missing values as 0 for tables by default
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2021-07-21 14:41:54 +12:00 |
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32345b9ec4
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Addresses #111
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2021-07-19 15:55:25 +12:00 |
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9334cf6cc6
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import: improved genbank parser and switch to version 3.0.1.b10
v3.0.1b10
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2021-06-17 08:42:01 +12:00 |
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8ec13a294c
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Switch to version 3.0.1b9
v3.0.1b9
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2021-06-01 09:21:43 +12:00 |
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3e45c34491
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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
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2021-06-01 09:21:07 +12:00 |
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c2f3d90dc1
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build_ref_db: set default threshold to 0.99
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2021-06-01 09:11:17 +12:00 |
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6b732d11d3
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align: fixed column URI parsing
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2021-06-01 09:10:21 +12:00 |
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9eb833a0af
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typo fix
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2021-06-01 09:09:16 +12:00 |
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6b7b0e3bd1
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cat: fixed the handling of dictionary columns
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2021-06-01 09:06:13 +12:00 |
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47691a8f58
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count: added option to specify the count column
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2021-06-01 09:05:14 +12:00 |
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b908b581c8
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clean: hid not implemented option
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2021-06-01 09:04:22 +12:00 |
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03c174fd7a
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grep: added taxonomy check
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2021-05-31 17:03:39 +12:00 |
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2156588ff6
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added TODO comment
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2021-05-31 17:01:57 +12:00 |
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6ff29c6a6a
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Increased maximum line count to 10E12
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2021-05-31 17:00:55 +12:00 |
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51a3c68fb5
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C: build_reference_db: fixed gcc warning/error
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2021-05-31 16:59:17 +12:00 |
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da91ffc2c7
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URI decoding: fixed reading a taxonomy before any view
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2021-05-31 16:57:20 +12:00 |
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c884615522
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obi stats: various fixes and improvements
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2021-05-31 16:51:06 +12:00 |
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cb53381863
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ecotag: BEST_MATCH_TAXIDS now dereplicated (no repeated taxids in the
list) and switch to version 3.0.1b8
v3.0.1b8
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2021-05-10 16:02:06 +12:00 |
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72b3e5d872
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switch to version 3.0.1b7
v3.0.1b7
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2021-04-07 10:31:54 +12:00 |
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238e9f70f3
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alignpairedend: fixed bug that would cut out sequence ends when it
should not have
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2021-04-07 10:31:12 +12:00 |
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e099a16624
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small fixes
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2021-04-07 10:28:02 +12:00 |
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847c9c816d
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import: fixed count estimation for tabular files with header
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2021-03-30 09:07:14 +13:00 |
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6026129ca8
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Fixes 101
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2021-03-30 09:06:08 +13:00 |
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169b6514b4
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small doc fixes
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2021-03-29 13:07:48 +13:00 |
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89b0c48141
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switch to version 3.0.1b6
v3.0.1b6
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2021-03-29 11:18:44 +13:00 |
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7c02782e3c
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import/export: workaround for issue where flake8(?) reads '\t' as
'\'+'t' when parsing an option value
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2021-03-29 11:18:19 +13:00 |
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ecc4c2c78b
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stats: improved the tabular display
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2021-03-29 09:03:32 +13:00 |
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f5413381fd
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C: taxonomy: fixed a bug where some taxa would not be stored in the
merged index
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2021-03-29 09:02:18 +13:00 |
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3e93cfff7b
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import: Columns are now rewritten in OBI_FLOAT if a value is > INT32_MAX
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2021-03-29 09:00:52 +13:00 |
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6d445fe3ad
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switch to version 3.0.1b5
v3.0.1b5
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2021-03-22 09:41:01 +13:00 |
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824deb7e21
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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)
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2021-03-18 09:17:06 +13:00 |
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d579bb2749
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switch to version 3.0.1b4
v3.0.1b4
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2021-03-16 17:40:58 +13:00 |
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10e5ebdbc0
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ngsfilter: fixed critical bug where barcodes shorter than the forward
primer would be missed
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2021-03-16 15:09:28 +13:00 |
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8833110490
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import: fixed the import of tabular files with no header
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2021-03-16 09:15:48 +13:00 |
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bd38449f2d
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switch to version 3.0.1b3
v3.0.1b3
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2021-03-15 16:50:17 +13:00 |
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904823c827
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uniq: now OK to use -m option even if only one unique key in information
to merge (e.g. one sample)
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2021-03-15 16:48:22 +13:00 |
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af68a1024c
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Switch to version 3.0.1b2
v3.0.1b2
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2021-03-15 16:26:43 +13:00 |
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425fe25bd2
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Made the OBITools3 more 'empty file friendly'
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2021-03-15 16:25:41 +13:00 |
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d48aed38d4
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switch to version 3.0.1b1
v3.0.1b1
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2021-03-11 17:11:23 +13:00 |
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5e32f8523e
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Merge branch 'wsl_version'
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2021-03-11 16:47:59 +13:00 |
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8f1d94fd24
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obi test: fixed bug introduced in ad1fd3c3
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2021-03-11 16:31:31 +13:00 |
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38f42cb0fb
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C: Made maximum file path length 2048 instead of 1024
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2021-03-11 15:23:22 +13:00 |
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7f0f63cf26
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C: now completely unmapping files before truncating them to a smaller
size (#68)
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2021-03-11 15:12:40 +13:00 |
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cba78111c9
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obi test: fixed bug introduced in previous version
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2021-03-11 11:36:52 +13:00 |
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41fbae7b6c
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Switch to version 3.0.0b43
v3.0.0b43
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2021-03-10 16:52:03 +13:00 |
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ad1fd3c341
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Now handling dictionaries with one key
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2021-03-10 16:50:30 +13:00 |
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fbf0f7dfb6
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import: improved genbank parser and switch to version 3.0.0b42
v3.0.0b42
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2021-02-17 15:26:35 +13:00 |
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fda0edd0d8
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Switch to version 3.0.0b41
v3.0.0b41
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2021-02-10 17:29:08 +13:00 |
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382e37a6ae
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Fixes #88
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2021-02-10 17:28:49 +13:00 |
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5cc3e29f75
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obi test: made less heavy by default
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2021-02-10 17:28:15 +13:00 |
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