ZSI-Bio CNV-opt issues - Githubissues

ZSI-Bio / CNV-opt

Copy number variation optimizer

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dockers for single R packages

#66 wkusmirek opened 6 years ago
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CANOESCOV package

#65 wkusmirek closed 6 years ago
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REFERENCE.SAMPLE.SET.SELECTOR package

#64 wkusmirek closed 6 years ago
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fast conversion of cov_table dataset

#63 wkusmirek closed 6 years ago
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publish TARGET.QC package in Jenkinsfile

#62 wkusmirek closed 6 years ago
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EXOMEDEPTHCOV package

#61 wkusmirek closed 6 years ago
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bugfix in evaluator module (strtoi function)

#60 wkusmirek opened 7 years ago
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new method of connection with psql database in CNVCALLER.EVALUATOR

#59 wkusmirek closed 7 years ago
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resultant calls table as parameter (not a hardcoded value)

#58 wkusmirek closed 7 years ago
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CNVCALLER.EVALUATOR package

#57 wkusmirek closed 7 years ago
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code cleanup

#56 wkusmirek closed 7 years ago
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remove hive connection, psql connection credits from docker env

#55 wkusmirek closed 7 years ago
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repo migration

#54 mwiewior closed 7 years ago
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remove hive connection, add docker env to psql connection

#53 wkusmirek closed 7 years ago
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change cov_avg into read_count

#52 wkusmirek closed 7 years ago
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add jvm as a parameter not a hardcoded value

#51 mwiewior opened 7 years ago
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Set jvm heap size 1.5g

#50 mwiewior closed 7 years ago
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refactor code to read read_count instead of cov_avg

#49 mwiewior opened 7 years ago
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Rewrite insert stmt into dbWriteTable

#48 mwiewior opened 7 years ago
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check why depends does not work

#47 mwiewior opened 7 years ago
1
Added scenario_id and changed cov=>read_count

#46 mwiewior closed 7 years ago
0
Add jdbc driver(hive,pgsql) to the zsi-bio-base-docker image

#45 mwiewior opened 7 years ago
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Add an option to either download jdbc driver from url or using a local path

#44 mwiewior opened 7 years ago
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Document luaching in a Docker container

#43 mwiewior opened 7 years ago
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add column with number of reads

#42 mwiewior opened 7 years ago
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add another id to identify group of chr from a single run (set of parametrs)

#41 mwiewior opened 7 years ago
1
R dbDisconnect does not close the session

#40 mwiewior opened 7 years ago
0
Added chr to increase parallelism level

#39 mwiewior closed 7 years ago
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Full dataset test

#38 mwiewior closed 7 years ago
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wrapper tests

#37 wkusmirek closed 7 years ago
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parameters from R script to docker env

#36 wkusmirek closed 7 years ago
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Comment out install cnvcaller

#35 mwiewior closed 7 years ago
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CNVCALLER.RUNNER package build 1

#34 tgambin closed 7 years ago
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callers wrapper

#33 wkusmirek closed 7 years ago
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test model for parameters and calls

#32 wkusmirek closed 7 years ago
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Fix to Jenkinsfile to enable running R tests in a Docker container

#31 mwiewior closed 7 years ago
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Make R unit tests be executed in Docker Container

#30 mwiewior closed 7 years ago
1
Run cnv caller mockup

#29 tgambin closed 7 years ago
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read and write to db

#28 tgambin opened 7 years ago
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run_cnvcaller - parameters from db

#27 tgambin opened 7 years ago
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add ext script

#26 tgambin closed 7 years ago
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Cnv caller wrapper

#25 tgambin closed 7 years ago
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Move run_CODEXCOV.R to inst

#24 mwiewior closed 7 years ago
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HMZDelFinder

#23 tgambin closed 7 years ago
0
xhmm pipeline

#22 tgambin opened 7 years ago
1
new interface to CODEXCOV package

#21 wkusmirek closed 7 years ago
1
Trigger for docker image

#20 mwiewior closed 7 years ago
0
Remove hardcoded package version for R in Jenkinsfile

#19 mwiewior opened 7 years ago
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R package build step

#18 mwiewior closed 7 years ago
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CODEX package

#17 wkusmirek closed 7 years ago
0