Sofia Stamouli
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7e7299203c
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Set values to false
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2022-12-02 08:55:23 +01:00 |
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sofstam
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6d140c683a
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Merge branch 'dev' into update_motus
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2022-12-01 18:49:23 +01:00 |
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James A. Fellows Yates
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80c25008d0
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Merge pull request #177 from nf-core/sep-krakenuniq-test
Separate KrakenUniq test run
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2022-12-01 17:34:30 +01:00 |
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nf-core-bot
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410196c37b
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[automated] Fix linting with Prettier
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2022-12-01 14:33:34 +00:00 |
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sofstam
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4800a5f03e
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Update schema
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2022-12-01 14:23:40 +01:00 |
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James A. Fellows Yates
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a34b240dfc
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Merge pull request #174 from nf-core/malt-update
Update MALT
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2022-12-01 13:58:30 +01:00 |
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James Fellows Yates
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f960c14caf
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Fix typos
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2022-12-01 13:46:57 +01:00 |
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sofstam
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38a818fd17
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Apply review suggestions
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2022-12-01 13:42:21 +01:00 |
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James A. Fellows Yates
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ef1d2da179
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Apply suggestions from code review
Co-authored-by: Moritz E. Beber <midnighter@posteo.net>
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2022-12-01 12:53:34 +01:00 |
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sofstam
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1965ade961
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Update schema
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2022-12-01 11:32:51 +01:00 |
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sofstam
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e5bb627402
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Apply review suggestions
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2022-12-01 11:12:31 +01:00 |
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James Fellows Yates
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bc98f5b80f
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Separate KrakenUniq test run
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2022-12-01 10:37:14 +01:00 |
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nf-core-bot
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8067012c01
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[automated] Fix linting with Prettier
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2022-12-01 09:15:35 +00:00 |
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James A. Fellows Yates
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4f6eb6fd75
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Merge pull request #153 from mjamy/add-krakenuniq-module
Add krakenuniq module
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2022-12-01 09:03:29 +01:00 |
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sofstam
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933b820c19
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Apply review suggestions
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2022-11-29 16:57:07 +01:00 |
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Sofia Stamouli
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e85c75dcba
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Merge branch 'dev' into update_motus
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2022-11-29 15:12:31 +01:00 |
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sofstam
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12dd836e9c
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Fix conflict
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2022-11-29 15:00:27 +01:00 |
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sofstam
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f389029848
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Fix merge conflic
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2022-11-29 14:38:39 +01:00 |
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James Fellows Yates
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d7fbe55849
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Add KU to the test profiles and add id to KU processes
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2022-11-29 14:19:01 +01:00 |
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Sofia Stamouli
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7e3ece53bd
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Update modules.config
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2022-11-29 13:31:00 +01:00 |
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Sofia Stamouli
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0088b07220
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Fix trailing whitespace
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2022-11-29 13:28:04 +01:00 |
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James A. Fellows Yates
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770a35d7ac
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Update conf/modules.config
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2022-11-29 12:49:20 +01:00 |
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Sofia Stamouli
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ba727a81ae
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Fix left-padding spaces
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2022-11-29 12:45:14 +01:00 |
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Sofia Stamouli
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71b52b9c94
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Apply review suggestions
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2022-11-29 11:58:23 +01:00 |
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James A. Fellows Yates
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3d949a803f
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Merge pull request #175 from nf-core/schema-clean
Fix schema location ofr fastqc/falco option
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2022-11-29 11:49:27 +01:00 |
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Sofia Stamouli
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fb6be69d7e
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Prettier should work now
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2022-11-29 11:37:20 +01:00 |
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sofstam
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644a29c699
|
Prettier
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2022-11-29 11:34:57 +01:00 |
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sofstam
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5254b8d679
|
Prettier
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2022-11-29 11:25:52 +01:00 |
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sofstam
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0235ef42ca
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Update nextflow_schema.json
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2022-11-29 11:15:40 +01:00 |
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sofstam
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49af33f68e
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Include NCBI_id, read counts and mgc arguments in motus
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2022-11-29 11:07:29 +01:00 |
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Moritz E. Beber
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af8ce2cbfd
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chore: update krakenuniq
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2022-11-29 10:27:35 +01:00 |
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James Fellows Yates
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d6c0ebb4c6
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Prettier
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2022-11-29 10:14:33 +01:00 |
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Moritz E. Beber
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ddcf38de22
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refactor: make mappings explicit
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2022-11-29 10:14:20 +01:00 |
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James Fellows Yates
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f13185d98b
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Fix schema location ofr fastqc/falco option
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2022-11-29 10:13:46 +01:00 |
|
James A. Fellows Yates
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f114cc4122
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Apply suggestions from code review
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2022-11-24 16:55:19 +01:00 |
|
James A. Fellows Yates
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17b1e3df1c
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Update test.config
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2022-11-24 16:53:39 +01:00 |
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James Fellows Yates
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a20b3e3c58
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Try to reduce MALT memory
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2022-11-24 15:51:12 +01:00 |
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James Fellows Yates
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131b39aa8b
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Fix linting
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2022-11-24 15:49:06 +01:00 |
|
James Fellows Yates
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9feb6c2db6
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Update MALT
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2022-11-24 14:44:04 +01:00 |
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Sofia Stamouli
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f8b769a8f0
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Merge pull request #172 from genomic-medicine-sweden/update_samtools_stats
Include the mapped reads in samtools stats
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2022-11-23 10:21:47 +01:00 |
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sofstam
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481f90589c
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Apply review suggestions
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2022-11-23 09:08:22 +01:00 |
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Moritz E. Beber
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b6f5930b49
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Merge pull request #171 from nf-core/chore-fail-slow
chore: let all tests run to completion
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2022-11-22 19:22:14 +01:00 |
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sofstam
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30af26a8b3
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Include the mapped reads in samtools stats
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2022-11-22 16:50:50 +01:00 |
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James Fellows Yates
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a383c9ae40
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Remove the join
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2022-11-22 13:39:21 +01:00 |
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James Fellows Yates
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06659af777
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Remove flatten
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2022-11-22 13:36:40 +01:00 |
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James Fellows Yates
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cacd7d3128
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Not just in stub
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2022-11-22 13:33:13 +01:00 |
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James Fellows Yates
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e8de006ed6
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With a join
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2022-11-22 13:27:49 +01:00 |
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James Fellows Yates
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ebfc84e235
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Does the grouping work if we have meta?
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2022-11-22 13:26:54 +01:00 |
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James Fellows Yates
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21759807f7
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Does flatten work?
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2022-11-22 12:48:54 +01:00 |
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James Fellows Yates
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3102e40052
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dump teh db
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2022-11-22 12:46:26 +01:00 |
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