Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / Bioconductor/AnnotationForge issues and pull requests

#59 - NCBI ftp: download fails

Issue - State: open - Opened by tghazanchyan 7 months ago - 3 comments

#58 - is.atomic(NULL) is FALSE now

Issue - State: open - Opened by antalk2 8 months ago

#57 - First pass at removing biomaRt

Pull Request - State: open - Opened by grimbough 11 months ago - 10 comments

#53 - Package from AnnotationForge is not available for this version of R

Issue - State: closed - Opened by phancanhtrinh over 1 year ago - 2 comments

#52 - Repeat building of makeOrgDbFromNCBI is significantly slower

Issue - State: closed - Opened by lshep over 1 year ago - 5 comments

#51 - Add RUnit to Suggests

Issue - State: closed - Opened by jwokaty almost 2 years ago
Labels: good first issue

#50 - "The 1st column must always be the gene ID 'GID'" error in makeOrgPackage

Issue - State: closed - Opened by LichengXX almost 2 years ago - 1 comment

#49 - timeout adjustment not respected

Issue - State: open - Opened by lshep almost 2 years ago - 24 comments

#48 - Error in MakingNewAnnotationPackages vignette

Issue - State: closed - Opened by amanda-hi almost 2 years ago - 1 comment

#47 - Error in making organism database using makeOrgPackageFromNCBI() function

Issue - State: open - Opened by Anisha-gupta04 almost 2 years ago - 6 comments

#46 - Optimizations and allow specification of the desired Ensembl release

Pull Request - State: closed - Opened by knokknok almost 2 years ago - 11 comments

#45 - Unnecessary queries?

Issue - State: closed - Opened by knokknok almost 2 years ago - 6 comments

#44 - Why are all the calls to Ensembl set to version 80?

Issue - State: closed - Opened by knokknok almost 2 years ago - 2 comments

#43 - Sqlforge rnw

Pull Request - State: closed - Opened by villafup almost 2 years ago - 1 comment

#42 - Making new organism packages rnw

Pull Request - State: closed - Opened by villafup almost 2 years ago - 1 comment

#41 - Convert makeProbePackage.Rnw to makeProbePackage.Rmd

Pull Request - State: closed - Opened by mcarlsn about 2 years ago - 1 comment

#40 - Error using makeOrgPackageFromNCBI()

Issue - State: open - Opened by MarttaLG over 2 years ago - 4 comments

#39 - Error when running makeOrgPackage (unable to Populate gene_info table)

Issue - State: closed - Opened by C2051 over 2 years ago - 2 comments

#37 - Error: Could not connect to database: unable to open database file

Issue - State: closed - Opened by yangskyfucker over 2 years ago - 1 comment

#36 - makeOrgPackage: out of memory

Issue - State: closed - Opened by yanpd01 over 2 years ago - 5 comments

#35 - Error in h(simpleError(msg, call)) while trying calling makeOrgPackageFromNCBI()

Issue - State: closed - Opened by lananh-ngn almost 3 years ago - 3 comments

#34 - No gene can be mapped

Issue - State: open - Opened by shiyi-pan almost 3 years ago - 2 comments

#33 - makeOrgPackageFromNCBI: Error in h(simpleError(msg, call))

Issue - State: open - Opened by phoebee-h almost 3 years ago

#32 - .get_file() helper in MakingNewAnnotationPackages.Rnw not working

Issue - State: closed - Opened by hpages almost 3 years ago - 2 comments

#31 - Populating genes table: Erreur : database is locked

Issue - State: closed - Opened by TSolDour almost 3 years ago - 4 comments

#30 - makeOrgPackageFromNCBI: Ensembl site unresponsive, trying useast mirror

Issue - State: closed - Opened by lshep almost 3 years ago - 1 comment

#29 - How to add description with makeOrgPackage

Issue - State: closed - Opened by phoebee-h about 3 years ago - 5 comments

#28 - Error in FUN(X[[i]], ...) : data.frames in '...' cannot contain duplicated rows

Issue - State: closed - Opened by najibveto about 3 years ago - 5 comments

#27 - update doc and message the user

Issue - State: closed - Opened by vjcitn about 3 years ago

#26 - failure with vignette example

Issue - State: closed - Opened by vjcitn about 3 years ago - 1 comment

#25 - Error in compiling package

Issue - State: closed - Opened by BaylorSci about 3 years ago - 3 comments

#23 - Fail to libaray the built package using makeOrgPackage

Issue - State: closed - Opened by hcph over 3 years ago - 4 comments

#22 - connection error while running makeOrgPackageFromNCBI()

Issue - State: closed - Opened by Easterwoman over 3 years ago - 7 comments

#21 - makeOrgPackageFromNCBI() error message

Issue - State: closed - Opened by mbxds5 over 3 years ago - 5 comments

#20 - Error accessing url

Issue - State: closed - Opened by npokorzynski over 3 years ago - 4 comments

#19 - Input file to include KEGG pathway

Issue - State: closed - Opened by xie186 over 3 years ago - 1 comment

#18 - goTable' GO Ids must be formatted like 'GO:XXXXXXX'

Issue - State: closed - Opened by najibveto over 3 years ago - 3 comments

#17 - makeOrgPackageFromNCBI never finishes

Issue - State: closed - Opened by npokorzynski almost 4 years ago - 3 comments

#16 - Forge OrgDb package

Issue - State: closed - Opened by imalsoft9 almost 4 years ago - 1 comment

#14 - makeOrgPackage - ERROR: Two fields in the source DB have the same name.

Issue - State: closed - Opened by javier-pardodiaz almost 5 years ago - 5 comments

#13 - problem with gene2unigene

Issue - State: closed - Opened by ldr89 almost 5 years ago - 4 comments

#11 - Error when running makeOrgPackageFromNCBI() from vignette

Issue - State: closed - Opened by janstrauss1 almost 5 years ago - 4 comments

#10 - Database created by makeOrgPackage() "not available for R 3.6.3"

Issue - State: closed - Opened by niahughes almost 5 years ago - 2 comments

#9 - How to deal with KEGG Pathway annotation with replicates

Issue - State: closed - Opened by guokai8 about 5 years ago - 1 comment

#8 - Problem with ENTREZID in org.Mxanthus.eg.db

Issue - State: closed - Opened by eduardoillueca over 5 years ago - 20 comments

#7 - Error : Invalid DESCRIPTION file

Issue - State: closed - Opened by kmosi0 over 5 years ago - 6 comments

#6 - Annotation database not working with topGO

Issue - State: closed - Opened by felixlaguna over 5 years ago - 1 comment

#5 - Error when running makeOrgPackage (unable to parse data tables)

Issue - State: closed - Opened by JackyHess almost 6 years ago - 13 comments

#2 - Dont delete template man dir

Pull Request - State: closed - Opened by martinholub over 6 years ago - 7 comments

#1 - Error running makeOrgPackage

Issue - State: closed - Opened by joonhoon over 6 years ago - 3 comments