Ecosyste.ms: Issues

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GitHub / ctSkennerton/minced issues and pull requests

#41 - understanding of the output file！

Issue - State: closed - Opened by allen-zhan340 over 1 year ago - 2 comments

#38 - Close the gff file handle.

Pull Request - State: closed - Opened by ctSkennerton about 2 years ago

#37 - java.io.FileNotFoundException: <file_name> (Too many open files) Error

Issue - State: open - Opened by tparket about 2 years ago - 4 comments

#36 - portions of repeats annotated as spacers

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

#35 - minced doesn't find a repeat if it is at the start of the fasta file

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

#34 - output with no repeat&spacer

Issue - State: open - Opened by 1185307269 over 2 years ago - 3 comments

#33 - add repeat sequence to database

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

#32 - Java version required for minced?

Issue - State: open - Opened by top334 almost 4 years ago - 1 comment

#31 - identify the spacer sense strand

Issue - State: closed - Opened by YiweiZhu over 4 years ago - 2 comments

#30 - Name and length of sequence is off in the output

Issue - State: closed - Opened by Russel88 about 5 years ago - 4 comments

#29 - Bump version string

Issue - State: closed - Opened by dpryan79 over 5 years ago - 1 comment

#28 - wrapper script not honouring JAVA_HOME

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

#27 - Minced java error

Issue - State: closed - Opened by sudeep71 over 5 years ago - 3 comments

#26 - Could you please allow for both gff output and minced file output?

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

#25 - Error processing input file

Issue - State: closed - Opened by johnomics about 6 years ago - 7 comments

#24 - High copy number repeats only found with --minNR 2

Issue - State: closed - Opened by iimog about 6 years ago - 2 comments

#23 - have you tried compiling minced with newer java or do i need to use 1.8?

Issue - State: closed - Opened by Phylloxera about 6 years ago - 1 comment

#22 - Output with too long spacers

Issue - State: open - Opened by Russel88 over 6 years ago - 2 comments

#21 - Part of repeat put on spacer sequence

Issue - State: closed - Opened by Russel88 over 6 years ago - 3 comments

#20 - Add /rpt_type=direct to GFF3 ?

Issue - State: closed - Opened by tseemann over 6 years ago - 1 comment

#18 - Can you compile the jar with -target 1.7 or whatever?

Issue - State: closed - Opened by tseemann almost 7 years ago - 2 comments

#16 - Make a 0.2.1 release?

Issue - State: closed - Opened by tseemann almost 7 years ago - 1 comment

#15 - Fix Makefile, test data and --version

Pull Request - State: closed - Opened by nsoranzo over 8 years ago - 2 comments

#14 - CRISPRDetect: A flexible algorithm to define CRISPR arrays

Issue - State: closed - Opened by tseemann over 8 years ago - 1 comment

#13 - Java error

Issue - State: closed - Opened by bforde almost 9 years ago - 1 comment

#12 - Unsupported major.minor version 52.0

Issue - State: closed - Opened by tseemann about 9 years ago - 2 comments

#11 - Up-to-date CHANGES file

Pull Request - State: closed - Opened by fangly over 9 years ago

#10 - minced now in Homebrew

Issue - State: closed - Opened by tseemann over 9 years ago - 1 comment

#9 - Option --version not in --help outout

Issue - State: closed - Opened by tseemann over 9 years ago - 3 comments

#8 - Sequences with lots of Ns make things run 10x slower

Issue - State: closed - Opened by tseemann over 9 years ago - 3 comments

#7 - Need an option to get the version

Issue - State: closed - Opened by tseemann about 10 years ago - 2 comments

#6 - How do I run the tests?

Issue - State: closed - Opened by tseemann about 10 years ago - 1 comment

#5 - Need to quote PHYS_DIR in minced launcer shell script

Issue - State: closed - Opened by tseemann about 10 years ago - 1 comment

#4 - Incorrect GFF location with sequence that is 100% CRISPR

Issue - State: closed - Opened by fangly over 10 years ago - 2 comments

#3 - Improved 'minced' shell wrapper

Issue - State: closed - Opened by tseemann about 11 years ago

#2 - Inconsistent column 2 in -gffFull output

Issue - State: closed - Opened by tseemann about 11 years ago

#1 - Usage issue

Issue - State: closed - Opened by tseemann about 11 years ago