Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / linsalrob/PhiSpy issues and pull requests
#68 - TypeError: start=x <class 'float'>
Issue -
State: open - Opened by schorlton-bugseq about 2 months ago
#67 - Error during processing, no result output - TypeError: expected str, bytes or os.PathLike object, not StringIO
Issue -
State: open - Opened by naturepoker 4 months ago
- 2 comments
#66 - output files not created
Issue -
State: open - Opened by oirazoki 6 months ago
- 2 comments
#65 - The glibc version is not compatible
Issue -
State: open - Opened by work-liuyang 8 months ago
- 1 comment
#63 - ValueError: Need a Nucleotide or Protein alphabet
Issue -
State: open - Opened by qianxin-kxy about 1 year ago
- 1 comment
#62 - conda installation failed
Issue -
State: closed - Opened by dr-joe-wirth about 1 year ago
- 3 comments
#61 - pVOG db no longer available
Issue -
State: closed - Opened by raw-lab over 1 year ago
- 1 comment
#60 - "Contig starting with a partial ORF" warning
Issue -
State: open - Opened by EGTortuero over 1 year ago
#59 - some problem with position of att site and prophage region
Issue -
State: open - Opened by work-liuyang about 2 years ago
- 4 comments
#58 - Parameter to indicate file name prefixes+
Issue -
State: closed - Opened by ireneortega about 2 years ago
- 1 comment
#57 - No bases were counted for orf
Issue -
State: open - Opened by simone-pignotti over 2 years ago
- 1 comment
#56 - Coordinates interpretation
Issue -
State: closed - Opened by iferres over 2 years ago
- 1 comment
#55 - GFF3 File - Include the att sites
Issue -
State: open - Opened by DNADoubleFelix over 2 years ago
#54 - prophage fasta file
Issue -
State: open - Opened by mujiezhang almost 3 years ago
#53 - Error when sequence ID is too long
Issue -
State: open - Opened by jcmckerral about 3 years ago
- 5 comments
Labels: help wanted, fix
#52 - Huge memory consumption and runtime with NNNNs
Issue -
State: closed - Opened by deprekate about 3 years ago
- 6 comments
#51 - RepeatFinder: NNNNNN
Issue -
State: closed - Opened by linsalrob about 3 years ago
Labels: enhancement
#50 - multi-contigs
Issue -
State: closed - Opened by frihaka about 3 years ago
- 3 comments
#49 - Not phage function
Issue -
State: closed - Opened by pdec about 3 years ago
- 1 comment
Labels: fix
#48 - The misc_feature location off by 1
Issue -
State: closed - Opened by deprekate over 3 years ago
#47 - phmms option cleanup
Issue -
State: closed - Opened by linsalrob over 3 years ago
- 1 comment
Labels: enhancement, fix
#46 - gbk outpout is the same file as gbk input file
Issue -
State: closed - Opened by Taalouane over 3 years ago
#45 - Unable to finish + excessive RAM usage
Issue -
State: closed - Opened by dcarrillouu over 3 years ago
- 10 comments
#44 - ValueError: missing molecule_type in annotations
Issue -
State: closed - Opened by snehamurthy21 over 3 years ago
#43 - ValueError: missing molecule_type in annotations
Issue -
State: closed - Opened by snehamurthy21 over 3 years ago
- 5 comments
Labels: bug
#42 - Additional testing/validation genomes
Issue -
State: closed - Opened by linsalrob almost 4 years ago
Labels: enhancement, help wanted
#41 - ValueError: missing molecule_type in annotations
Issue -
State: closed - Opened by tauqeer9 almost 4 years ago
- 5 comments
Labels: bug
#40 - Version 4.2.0
Pull Request -
State: closed - Opened by pdec almost 4 years ago
Labels: enhancement, fix
#39 - Fixing phmms data use condition
Issue -
State: closed - Opened by pdec about 4 years ago
Labels: bug
#38 - Keep CDS parts in original frame
Issue -
State: closed - Opened by pdec about 4 years ago
Labels: bug
#37 - Write out phage/not phage genbank files
Issue -
State: closed - Opened by linsalrob about 4 years ago
Labels: enhancement
#36 - Selecting features measurements
Issue -
State: closed - Opened by pdec about 4 years ago
- 1 comment
Labels: enhancement, question
#35 - Splitting/merging joined features
Issue -
State: closed - Opened by pdec about 4 years ago
Labels: bug
#34 - Fix status score when rank value above the threshold
Issue -
State: closed - Opened by pdec about 4 years ago
Labels: bug
#33 - Mark prophage regions at the end of contigs
Issue -
State: open - Opened by linsalrob about 4 years ago
Labels: enhancement
#32 - added code for fasta outputs and cleaned up maketrain
Pull Request -
State: closed - Opened by laurasisk about 4 years ago
#31 - Impossible to use training sets kept in other location than INSTALLATION_DIR
Issue -
State: open - Opened by pdec about 4 years ago
- 1 comment
Labels: enhancement
#30 - Integrated HMM search signal
Pull Request -
State: closed - Opened by pdec over 4 years ago
Labels: enhancement, fix
#29 - repeatfinder breaks with CentOS8
Issue -
State: closed - Opened by linsalrob over 4 years ago
#28 - Minor changes and suguestions
Issue -
State: closed - Opened by metageni over 4 years ago
- 1 comment
#27 - PhiSpy.py: error: unrecognized arguments: -f (update README)
Issue -
State: closed - Opened by metageni over 4 years ago
#26 - Choice of the longest repeats is non-deterministic
Issue -
State: closed - Opened by linsalrob over 4 years ago
#25 - Updating master and working
Pull Request -
State: closed - Opened by linsalrob over 4 years ago
#24 - Move all command line argument parsing code in PhiSpy.py to the helper_functions.py file
Issue -
State: closed - Opened by deprekate over 4 years ago
- 2 comments
#23 - Automatic preparation of training sets and some minor updates
Pull Request -
State: closed - Opened by pdec over 4 years ago
Labels: enhancement
#22 - Fixed error of using wrong variable to set cutoff for min number of genes for a prophage
Pull Request -
State: closed - Opened by deprekate over 4 years ago
Labels: fix
#21 - switch randomforest implementation
Issue -
State: closed - Opened by deprekate over 4 years ago
- 1 comment
#20 - Lower the gene window
Issue -
State: closed - Opened by deprekate over 4 years ago
- 1 comment
#19 - ASCI
Issue -
State: closed - Opened by bognabognabogna over 4 years ago
- 2 comments
#18 - Ready for v3.4
Pull Request -
State: closed - Opened by pdec over 4 years ago
- 1 comment
#17 - Output GFF3
Issue -
State: closed - Opened by JFsanchezherrero over 4 years ago
- 1 comment
#16 - Fixing ShannonSlope calculation and updating phage kmers lists
Pull Request -
State: closed - Opened by pdec over 4 years ago
#15 - PR to complete the update process
Pull Request -
State: closed - Opened by linsalrob almost 5 years ago
- 1 comment
#14 - Get new Working Repo
Pull Request -
State: closed - Opened by linsalrob almost 5 years ago
#13 - numpy.core.umath_tests
Issue -
State: closed - Opened by linsalrob almost 5 years ago
- 1 comment
#12 - Fixed code and added make_train_set
Pull Request -
State: closed - Opened by deprekate almost 5 years ago
#11 - Working
Pull Request -
State: closed - Opened by deprekate almost 5 years ago
#10 - Updated code to Python3
Pull Request -
State: closed - Opened by deprekate almost 5 years ago
- 2 comments
#9 - Output formatting and tempRepeatDNA
Issue -
State: closed - Opened by JoeHeffron almost 5 years ago
- 2 comments
#8 - PhiSpy installation
Issue -
State: closed - Opened by JPiy over 5 years ago
#7 - PhiSpy does not support Python 3
Issue -
State: closed - Opened by chris-rands over 5 years ago
- 2 comments
#6 - Output
Issue -
State: closed - Opened by catastrofia over 6 years ago
- 4 comments
#5 - bug report
Issue -
State: closed - Opened by HaidYi over 6 years ago
#4 - output files
Issue -
State: closed - Opened by ovpop100 over 6 years ago
#3 - i made a singularity container
Pull Request -
State: closed - Opened by scottdaniel over 6 years ago
- 1 comment
#2 - Added data directory
Pull Request -
State: closed - Opened by deprekate over 7 years ago
#1 - Build Failure
Issue -
State: closed - Opened by xiaoyunpang almost 8 years ago
- 1 comment