kfukuta/wf-transcriptomes-v202
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Author SHA1 Message Date
Matt Parker
b7efda8e16 Merge branch 'new-ci-rules' into 'dev' 
Implementing SN new CI rules

See merge request epi2melabs/workflow-containers/wf-isoforms!52
 2022-05-26 09:33:45 +00:00
Matt Parker
79a4bec16d Zero hour 9:00 a.m. 2022-05-26 08:27:38 +01:00
Neil Horner
ebf814b4e2 Merge branch 'gh_8' into 'dev' 
Github issues

See merge request epi2melabs/workflow-containers/wf-isoforms!51
 2022-04-11 15:08:47 +00:00
Neil Horner
3b69e64c4f Github issues 2022-04-11 15:08:47 +00:00
Neil Horner
00255c86f7 Merge branch 'docs' into 'dev' 
New docs format

See merge request epi2melabs/workflow-containers/wf-isoforms!50
 2022-04-08 16:33:50 +00:00
Neil Horner
e2f290b415 New docs format 2022-04-08 16:33:50 +00:00
Neil Horner
b4fac77b11 Merge branch 'gh#8' into 'dev' 
Empty dataframe bug

Closes CW-603

See merge request epi2melabs/workflow-containers/wf-isoforms!49
 2022-04-07 12:57:38 +00:00
Neil Horner
39f478ceef Empty dataframe bug 2022-04-07 12:57:38 +00:00
Neil Horner
0ac1054064 Merge branch 'fnames' into 'dev' 
Fnames

Closes CW-565

See merge request epi2melabs/workflow-containers/wf-isoforms!47
 2022-04-06 09:45:26 +00:00
Neil Horner
07275010c0 Fnames 2022-04-06 09:45:25 +00:00
Neil Horner
63c4b5c7a5 Merge branch 'direct_rna' into 'dev' 
Re-add ability to do direct RNA

Closes CW-566

See merge request epi2melabs/workflow-containers/wf-isoforms!46
 2022-04-05 18:04:17 +00:00
Neil Horner
c2a0f8dc21 Re-add ability to do direct RNA 2022-04-05 18:04:16 +00:00
Neil Horner
7dfea725a0 Merge branch 'clv0.1.1' into 'dev' 
bump CHANGELOG version

See merge request epi2melabs/workflow-containers/wf-isoforms!45
 2022-03-02 21:56:41 +00:00
Neil Horner
4ddc1f16ab bump CHANGELOG version 2022-03-02 19:50:29 +00:00
Neil Horner
778b769a9b Merge branch 'fix_output' into 'dev' 
Add  to output process

See merge request epi2melabs/workflow-containers/wf-isoforms!44
 2022-03-02 15:23:49 +00:00
Neil Horner
f45fa8f2f2 Add to output process 2022-03-02 15:08:06 +00:00
Neil Horner
0d3bd221f0 Merge branch 'post-cw460' into 'dev' 
Post cw460

See merge request epi2melabs/workflow-containers/wf-isoforms!43
 2022-03-02 14:15:39 +00:00
Neil Horner
4d91b738e1 Post cw460 2022-03-02 14:15:39 +00:00
Neil Horner
61573e1117 Merge branch 'cw-460' into 'dev' 
Denovo bug fixes

Closes CW-460

See merge request epi2melabs/workflow-containers/wf-isoforms!42
 2022-03-02 11:34:22 +00:00
Neil Horner
03b8ba51f6 Denovo bug fixes 2022-03-02 11:34:21 +00:00
Neil Horner
b56cec9994 Merge branch 'table_to_aplanat' into 'dev' 
Moved fiterable table into aplanat and general tidy up

See merge request epi2melabs/workflow-containers/wf-isoforms!36
 2022-02-28 14:17:46 +00:00
Neil Horner
7e33eb2c3b Moved fiterable table into aplanat and general tidy up 2022-02-28 14:17:46 +00:00
Neil Horner
8b1cc95433 Merge branch 'schema_split' into 'dev' 
Seperated out the params into logical sections

See merge request epi2melabs/workflow-containers/wf-isoforms!40
 2022-02-23 14:58:39 +00:00
Neil Horner
76fd8f9c81 Seperated out the params into logical sections 2022-02-23 14:58:39 +00:00
Neil Horner
4782a1473c Merge branch 'release_0.1.0_fix' into 'dev' 
Updated version in schema

See merge request epi2melabs/workflow-containers/wf-isoforms!38
 2022-02-07 14:24:20 +00:00
Neil Horner
3030ccbbdf Updated version in schema 2022-02-07 11:56:42 +00:00
Neil Horner
4a978c1a4c Merge branch 'release_0.1.0_fix' into 'dev' 
Addded 'v' to changelog version

See merge request epi2melabs/workflow-containers/wf-isoforms!37
 2022-02-07 11:44:44 +00:00
Neil Horner
a7568c00b7 Addded v to changelog version 2022-02-07 11:36:25 +00:00
Neil Horner
ddca3e6208 Merge branch 'denovo3' into 'dev' 
Merge de novo pipeline

Closes #1

See merge request epi2melabs/workflow-containers/wf-isoforms!35
 2022-01-26 15:54:59 +00:00
Neil Horner
5dfbb0f38a Merge de novo pipeline 2022-01-26 15:54:55 +00:00
Thomas Rich
391b5d5c84 Merge branch 'update-schema' into 'dev' 
Update nextflow_schema.json

See merge request epi2melabs/workflow-containers/wf-isoforms!32
 2022-01-11 16:04:22 +00:00
Thomas Rich
151ef46522 Update nextflow_schema.json 2022-01-11 16:04:22 +00:00
Neil Horner
de3edcb31e Merge branch 'port_from_snakemake' into 'dev' 
Initial port of ref-isoforms to Nextflow

Closes #1

See merge request epi2melabs/workflow-containers/wf-isoforms!31
 2021-12-08 14:34:18 +00:00
Neil Horner
458ac5d274 Initial port of ref-isoforms to Nextflow 2021-12-08 14:34:07 +00:00
Chris Wright
4a1b5cd50b Merge branch 'schema' into 'dev' 
add schema

See merge request epi2melabs/workflow-containers/wf-template!25
 2021-09-29 09:51:37 +00:00
Chris Wright
6f6ff11257 Merge branch 'remoteinputs' into 'dev' 
Support s3 input paths

See merge request epi2melabs/workflow-containers/wf-template!26
 2021-09-29 09:51:32 +00:00
Chris Wright
038d399b12 Support s3 input paths 2021-09-28 17:11:33 +01:00
Chris Wright
e486b98a2c add schema 2021-09-28 15:11:18 +01:00
Sarah Griffiths
0d230e3930 Merge branch 'align-parameters' into 'dev' 
align parameters

See merge request epi2melabs/workflow-containers/wf-template!24
 2021-09-10 14:19:24 +00:00
Sarah Griffiths
2be5b01cc8 align parameters 2021-09-10 13:59:43 +00:00
Sarah Griffiths
c8c79a6a36 Merge branch 'CW-244' into 'dev' 
CW-244 optional report name

Closes CW-244

See merge request epi2melabs/workflow-containers/wf-template!23
 2021-09-09 13:39:17 +00:00
Sarah Griffiths
167deee265 CW-244 optional report name 2021-09-09 13:39:17 +00:00
Sarah Griffiths
d030e654e9 Merge branch 'CW-247' into 'dev' 
CW-247 error on no fastq

Closes CW-247

See merge request epi2melabs/workflow-containers/wf-template!22
 2021-09-09 10:15:34 +00:00
Sarah Griffiths
fb0230358f Update fastqingress.nf to give error message if no fastq files 2021-09-08 13:42:51 +00:00
Thomas Rich
62425e1d89 Merge branch 'add-params-table' into 'dev' 
Add params table in report and process

See merge request epi2melabs/workflow-containers/wf-template!20
 2021-08-19 14:48:39 +00:00
Amber Wright
fe03715e6b Merge branch 'duplicate_dockerignore_entry' into 'dev' 
Update .dockerignore duplicate entry

See merge request epi2melabs/workflow-containers/wf-template!21
 2021-07-29 13:23:39 +00:00
Amber Wright
3ac6cc9768 Update .dockerignore duplicate entry 2021-07-29 13:18:18 +00:00
Karhide
ca5111b287 Add params table in report and process 2021-07-29 12:32:19 +01:00
Chris Wright
ab1706603b Bump version 2021-07-28 17:30:27 +00:00
Chris Wright
621e910c5d Merge branch 'mamba' into 'dev' 
Switch conda profile to use mamba

See merge request epi2melabs/workflow-containers/wf-template!19
 2021-07-27 13:45:22 +00:00