dputhier pygtftk issues

dputhier / pygtftk

A python package and a set of shell commands to handle GTF files

GNU General Public License v3.0

44 stars 6 forks source link

issues

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failed installation

#186 rongrongy closed 1 week ago
2
[Snyk] Security upgrade urllib3 from 2.0.7 to 2.2.2

#185 dputhier opened 1 month ago
0
AttributeError: 'Series' object has no attribute 'append'

#184 gyanmishra opened 3 months ago
1
Need a python 3.9 or 3.10

#183 dputhier opened 3 months ago
0
[Snyk] Security upgrade fonttools from 4.38.0 to 4.43.0

#182 dputhier opened 7 months ago
0
ERROR-get_tx_seq : No genes were found on chromosomes defined in fasta file.

#180 yaskermezli opened 1 year ago
6
Segmentation fault core dumped error when reading GTF in python script

#179 almart7 closed 1 year ago
2
fixed dash server problem with adding name argument to dash instance

#178 Ouertani95 closed 2 years ago
0
get_5p_3p_coordsusing the --more-names argument

#177 yaskermezli closed 2 years ago
3
Pygtftk version is unsync in pip and bioconda

#176 dputhier closed 2 years ago
1
Install error on ubuntu 20.04

#175 samanthaconte closed 2 years ago
2
Due to issue with htslib force pysam to at least 0.17.0

#174 dputhier closed 2 years ago
1
Develop an argument to add a column with a particular text (col_from_tab)

#173 dputhier closed 2 years ago
0
add output field separator to col_from_tab

#172 dputhier closed 2 years ago
0
gtftk get_tx_seq: issue with chromosome names

#171 dputhier opened 2 years ago
1
Unable to change directory to 'release-106

#170 dputhier closed 2 years ago
1
Need to synchronize requirement.txt and meta.yaml

#169 dputhier opened 2 years ago
0
Issue with build on bioconda docker image

#168 dputhier closed 2 years ago
0
Change python version prequirements in README

#167 dputhier closed 2 years ago
0
Error with pyparsing

#166 dputhier closed 2 years ago
1
Support for Python 3.9

#165 dputhier closed 2 years ago
1
section "Writing your own commands" from doc is deprecated.

#164 dputhier closed 2 years ago
0
segmentation fault on a SLURM cluster for 'gtftk short_long' command

#163 mickey-spongebob closed 3 years ago
6
Bioconda build

#162 dputhier closed 3 years ago
6
|-- 11:03-WARNING-profile : PlotnineError error, can not show group number: Aesthetics {'ha'} specified two times

#161 dputhier opened 3 years ago
2
Documentation failed due to ologram issue

#160 dputhier closed 3 years ago
14
Found conflicts! Looking for incompatible packages. This can take several minutes. UnsatisfiableError:

#159 samanthaconte closed 3 years ago
4
gtf.tail(): local variable 'gtf_sub' referenced before assignment

#158 dputhier closed 3 years ago
0
OLOGRAM: exclusive combinations

#157 dputhier closed 3 years ago
3
The default value of -j/--sort-features in OLOGRAM should be summed_bp_overlaps_true

#156 dputhier closed 3 years ago
1
tp_vectorcall

#155 dputhier closed 3 years ago
1
if ((1 == 0)) abort();

#154 dputhier closed 3 years ago
4
ImportError: libhts.so.2

#153 yaskermezli closed 3 years ago
4
TypeError: a bytes-like object is required, not 'tuple'

#152 dputhier closed 3 years ago
1
dlopen: cannot load any more object with static TLS

#151 dputhier closed 3 years ago
6
OLOGRAM: write the name of the query file somewhere in the he report.

#150 dputhier closed 3 years ago
3
OLOGRAM: Add an argument to hide bars undefined pvalue

#149 dputhier closed 3 years ago
2
some typo and remarks and ologram

#148 dputhier closed 3 years ago
2
merge_attr

#147 dputhier closed 3 years ago
0
--chom-file should support ensembl format

#146 dputhier closed 3 years ago
0
UnsatisfiableError: The following specifications were found to be incompatible with each other:

#145 dputhier closed 3 years ago
4
Pb when using chromosome without 'chr' prefix

#144 dputhier closed 3 years ago
3
User should be warned not to install pygtftk under unsupported python version

#143 dputhier closed 3 years ago
0
AttributeError: module 'yaml' has no attribute 'dump' installing pygtftk

#142 Norisad closed 3 years ago
4
Tests on arguments not performed when using Python API

#141 dputhier closed 3 years ago
3
Conda installation not working

#140 amathelier closed 3 years ago
8
Issue in nose test (./stats/intersect/modl/dict_learning.py)

#139 dputhier closed 3 years ago
29
FAIL: Doctest: pygtftk.stats.intersect.modl.dict_learning.squish_matrix

#138 dputhier closed 3 years ago
4
Bio.Alphabet has been removed from Biopython.

#137 dputhier closed 3 years ago
0
profile: etst fail with plotnine 0.7.1

#136 dputhier closed 3 years ago
2