Ecosyste.ms: Issues

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

GitHub / soedinglab/metaeuk issues and pull requests

#92 - How can i annotate my eukaryotic MAGs by metaeuk?

Issue - State: open - Opened by YoungerRen 6 months ago - 3 comments

#91 - Cannot write fas.0, unitesetstofasta step died

Issue - State: open - Opened by katharinedickson 6 months ago - 9 comments

#90 - [Feature Request] If amino acid input is detected. Exit with non-zero error code.

Issue - State: open - Opened by jolespin 8 months ago
Labels: enhancement

#89 - [Question] Advice on setting up MetaEuk for 140 genomes?

Issue - State: closed - Opened by jolespin 11 months ago - 1 comment

#88 - Error using `--add-orf-stop`

Issue - State: closed - Opened by berkelem 12 months ago - 5 comments
Labels: bug

#87 - Settings to produce a convertalis table to output a blast outfm6 table.

Issue - State: open - Opened by JoshuaTCooper about 1 year ago - 1 comment

#85 - Build fails on some architectures: ld: error: undefined symbol: roundevenf

Issue - State: closed - Opened by yurivict about 1 year ago - 12 comments

#84 - Metaeuk: GITDIR-NOTFOUND

Issue - State: open - Opened by ReemaSingh over 1 year ago - 1 comment

#83 - Can metaeuk enforce splice site checking?

Issue - State: open - Opened by melop over 1 year ago - 2 comments

#82 - "tmp" directory does not automatically remove

Issue - State: open - Opened by Zjianglin over 1 year ago - 2 comments

#81 - Your opinion on Miniprot

Issue - State: open - Opened by shelkmike over 1 year ago - 4 comments

#79 - easypredict.sh error 13 (Permission denied)

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

#78 - [Question] Can MetaEuk utilize the MMSEQS2 clustering results?

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

#77 - Not support very long chromosomes?

Issue - State: open - Opened by zhangrengang almost 2 years ago - 8 comments

#76 - Not support very long chromosomes?

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

#75 - Not support very long chromosomes?

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

#74 - Not support very long chromosomes?

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

#73 - Not support very long chromosomes?

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

#72 - Not support very long chromosomes?

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

#71 - Not support very long chromosomes?

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

#70 - Not support very long chromosomes?

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

#69 - Not support very long chromosomes?

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

#68 - Not support very long chromosomes?

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

#67 - Not support very long chromosomes?

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

#66 - Not support very long chromosomes?

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

#65 - Not support very long chromosomes?

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

#64 - Not support very long chromosomes?

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

#63 - Not support very long chromosomes?

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

#62 - Not support the very long chromosomes?

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

#61 - Not support very long chromosomes?

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

#60 - Update EasyPredict.cpp

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

#58 - Annotation of recent assembly genome using MetaEuk

Issue - State: open - Opened by BenAawf about 2 years ago - 1 comment

#57 - fix spelling issues

Pull Request - State: closed - Opened by satta about 2 years ago - 6 comments

#56 - Running easy-predict with profiles and multiple iterations does not work

Issue - State: closed - Opened by olekto about 2 years ago - 3 comments

#55 - Fails to build where OpenMP isn't available when -DREQUIRE_OPENMP=0 is set

Issue - State: open - Opened by yurivict about 2 years ago
Labels: bug

#54 - threads of metaeuk

Issue - State: closed - Opened by Fang-Liu-CAS about 2 years ago - 2 comments

#53 - Empty output files.

Issue - State: closed - Opened by DanieleDeco over 2 years ago - 7 comments

#52 - Split big CDS to subCDS using gff

Issue - State: open - Opened by ucabuk over 2 years ago - 1 comment

#52 - Split big CDS to subCDS using gff

Issue - State: open - Opened by ucabuk over 2 years ago - 1 comment

#51 - Calculation of alignments step died

Issue - State: open - Opened by AlexSongh over 2 years ago - 10 comments

#50 - Does MetaEuk provide official test cases?

Issue - State: closed - Opened by YFLEEL over 2 years ago - 16 comments

#49 - [Question] How to estimate memory usage?

Issue - State: open - Opened by jolespin over 2 years ago - 1 comment

#48 - compile from source have some problems

Issue - State: open - Opened by jamdodot over 2 years ago - 24 comments

#47 - unitesetstofasta error: There should be 19 columns in the input file

Issue - State: closed - Opened by mgabriell1 over 2 years ago - 2 comments

#46 - How can I use metaeuk to annotation genome without reference

Issue - State: open - Opened by Nana7m1 almost 3 years ago - 4 comments

#45 - Error in MetaEuk during BUSCO run

Issue - State: open - Opened by berkelem almost 3 years ago - 4 comments

#44 - Multiple round of metaeuk

Issue - State: open - Opened by xiekunwhy almost 3 years ago - 1 comment

#43 - predicted proteins not starting with M ?

Issue - State: open - Opened by Tkastylevsky almost 3 years ago - 2 comments
Labels: enhancement

#42 - Request for better documentation of aggregatetax module

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

#41 - [Feature Request] Option to choose between MMSeqs2 and Diamond?

Issue - State: closed - Opened by jolespin almost 3 years ago - 5 comments

#40 - Unable to run metaeuk taxtocontig

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

#39 - I can't find 'contigs' output to pass to taxtocontig

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

#38 - Used EukRep and then MetaEuk but the output is mostly bacteria

Issue - State: open - Opened by ereyred about 3 years ago - 7 comments

#37 - limit / reduce disk space usage

Issue - State: open - Opened by chrishah about 3 years ago - 3 comments

#36 - The gff format is wrong?

Issue - State: closed - Opened by xiekunwhy over 3 years ago - 14 comments

#35 - How to use EST sequence as databse instead of protein?

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

#34 - mention of multithreading but no documentation of using it

Issue - State: closed - Opened by pdimens over 3 years ago - 2 comments

#33 - metaEuk does not output a gff

Issue - State: closed - Opened by angelovaag over 3 years ago - 2 comments

#31 - Taxdatabase error

Issue - State: closed - Opened by H1889 over 3 years ago - 13 comments

#30 - Any tutorials or example of end to end workflows?

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

#29 - How to visualize metaeuk results?

Issue - State: closed - Opened by JSSaini over 3 years ago - 2 comments

#28 - Can this be used with transcript contigs?

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

#27 - metaeuk taxtocontig could not go through

Issue - State: closed - Opened by cam315 over 3 years ago - 7 comments

#26 - Taxtocontig Error at Prefilter Step

Issue - State: closed - Opened by ys117vt over 3 years ago - 11 comments

#25 - Taxotocontig test file run issue

Issue - State: closed - Opened by ys117vt over 3 years ago - 6 comments

#24 - Easy-Predict/Reading results step error: swap results died

Issue - State: closed - Opened by ys117vt almost 4 years ago - 21 comments

#23 - easy-predict output

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

#22 - Metaeuk dies with 'Cannot close data file .../nucl_6f' or similar

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

#21 - Stop codons apparently excluded from output

Issue - State: closed - Opened by nhartwic almost 4 years ago - 3 comments
Labels: enhancement

#20 - type of compression ?

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

#19 - Missing tax_per_pred_aln during taxtocontig

Issue - State: closed - Opened by michoug almost 4 years ago - 2 comments

#18 - Excepted size prefilter and --disk-space-limit

Issue - State: open - Opened by michoug almost 4 years ago - 3 comments

#17 - Query sequence type not implemented!

Issue - State: closed - Opened by olekto almost 4 years ago - 6 comments

#16 - Question: multicellular eukaryotes?

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

#15 - Does the pipeline filter eukaryotes in the first stage?

Issue - State: closed - Opened by drelo about 4 years ago - 2 comments

#14 - Update README.md

Pull Request - State: closed - Opened by Juke34 about 4 years ago

#13 - Exon coordinates on negative strand

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

#12 - reference gene set

Issue - State: closed - Opened by Francesca87 over 4 years ago - 3 comments

#11 - Update conda version?

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

#10 - Terrestrial arthropods

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

#9 - Why my metaeuk search is very slow?

Issue - State: open - Opened by liuxianghui over 4 years ago - 3 comments

#8 - Stalled at prefitering?

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

#7 - Fasta entry: 0 is invalid on RefSeq Fasta

Issue - State: closed - Opened by openpaul almost 5 years ago - 1 comment

#6 - Segfault with predictexons step (running easy-predict)

Issue - State: closed - Opened by domenico-simone almost 5 years ago - 1 comment

#5 - No docker image available on dockerhub?

Issue - State: closed - Opened by domenico-simone almost 5 years ago - 6 comments

#4 - Add option to output a GFF3 file

Issue - State: closed - Opened by apcamargo almost 5 years ago - 2 comments
Labels: enhancement

#3 - Can not allocate entries memory in IndexTable::initMemory

Issue - State: closed - Opened by sarah872 about 5 years ago - 1 comment

#2 - Broken MERC_MMETSP_Uniclust50_profiles.tar.gz

Issue - State: closed - Opened by sarah872 about 5 years ago - 3 comments

#1 - broken link

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