Closed ghost closed 5 years ago
Hello
Here is my run command:
NanoPlot --fastq fastq_runid_fe24fa25f3bfad833de46efbd3e24c55dbeadf9e_0.fastq
I'm getting the follow error:
2018-10-22 13:05:04,128 NanoPlot 1.18.2 started with arguments Namespace(N50=False, alength=False, bam=None, barcoded=False, color='#4CB391', cram=None, downsample=None, dpi=100, drop_outliers=False, fasta=None, fastq=['fastq_runid_fe24fa25f3bfad833de46efbd3e24c55dbeadf9e_0.fastq'], fastq_minimal=None, fastq_rich=None, font_scale=1, format='png', listcolors=False, loglength=False, maxlength=None, minlength=None, minqual=None, no_N50=False, outdir='.', percentqual=False, pickle=None, plots=['kde', 'dot'], prefix='', raw=False, readtype='1D', runtime_until=None, store=False, summary=None, threads=4, title=None, verbose=False) 2018-10-22 13:05:04,129 Python version is: 3.6.5 |Anaconda, Inc.| (default, Apr 29 2018, 16:14:56) [GCC 7.2.0] 2018-10-22 13:05:04,507 Nanoplotter: valid output format png 2018-10-22 13:05:04,549 Nanoget: Starting to collect statistics from plain fastq file. 2018-10-22 13:05:50,488 Reduced DataFrame memory usage from 0.3752288818359375Mb to 0.250152587890625Mb 2018-10-22 13:05:50,501 Nanoget: Gathered all metrics of 16394 reads 2018-10-22 13:05:50,525 Calculated statistics 2018-10-22 13:05:50,525 Using sequenced read lengths for plotting. 2018-10-22 13:05:50,525 Processed the reads, optionally filtered. 16394 reads left 2018-10-22 13:05:50,526 Nanoplotter: Valid color #4CB391. 2018-10-22 13:05:50,526 Nanoplotter: Creating length plots for Read length. 2018-10-22 13:05:50,526 Nanoplotter: Using 16394 reads maximum of 116013bp. 2018-10-22 13:05:54,516 Created length plots 2018-10-22 13:05:54,516 Nanoplotter: Creating Read lengths vs Average read quality plots using statistics from 16394 reads. 2018-10-22 13:05:54,715 Unknown property height Traceback (most recent call last): File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/nanoplot/NanoPlot.py", line 92, in main plots = make_plots(datadf, settings) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/nanoplot/NanoPlot.py", line 328, in make_plots plot_settings=plot_settings) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/nanoplotter/nanoplotter_main.py", line 138, in scatter joint_kws={"s": 1}) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/seaborn/axisgrid.py", line 2247, in jointplot grid.plot_joint(plt.scatter, joint_kws) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/seaborn/axisgrid.py", line 1755, in plot_joint func(self.x, self.y, kwargs) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/matplotlib/pyplot.py", line 3470, in scatter edgecolors=edgecolors, data=data, *kwargs) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/matplotlib/init.py", line 1855, in inner return func(ax, args, **kwargs) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/matplotlib/axes/_axes.py", line 4323, in scatter collection.update(kwargs) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/matplotlib/artist.py", line 888, in update for k, v in props.items()] File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/matplotlib/artist.py", line 888, in for k, v in props.items()] File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/matplotlib/artist.py", line 881, in _update_property raise AttributeError('Unknown property %s' % k) AttributeError: Unknown property height
Duplicate of https://github.com/wdecoster/NanoPlot/issues/88
Please let me know if the proposed solution does not work.
Closing due to lack of response, please let me know if the issue persists.
Hello
Here is my run command:
NanoPlot --fastq fastq_runid_fe24fa25f3bfad833de46efbd3e24c55dbeadf9e_0.fastq
I'm getting the follow error:
2018-10-22 13:05:04,128 NanoPlot 1.18.2 started with arguments Namespace(N50=False, alength=False, bam=None, barcoded=False, color='#4CB391', cram=None, downsample=None, dpi=100, drop_outliers=False, fasta=None, fastq=['fastq_runid_fe24fa25f3bfad833de46efbd3e24c55dbeadf9e_0.fastq'], fastq_minimal=None, fastq_rich=None, font_scale=1, format='png', listcolors=False, loglength=False, maxlength=None, minlength=None, minqual=None, no_N50=False, outdir='.', percentqual=False, pickle=None, plots=['kde', 'dot'], prefix='', raw=False, readtype='1D', runtime_until=None, store=False, summary=None, threads=4, title=None, verbose=False) 2018-10-22 13:05:04,129 Python version is: 3.6.5 |Anaconda, Inc.| (default, Apr 29 2018, 16:14:56) [GCC 7.2.0] 2018-10-22 13:05:04,507 Nanoplotter: valid output format png 2018-10-22 13:05:04,549 Nanoget: Starting to collect statistics from plain fastq file. 2018-10-22 13:05:50,488 Reduced DataFrame memory usage from 0.3752288818359375Mb to 0.250152587890625Mb 2018-10-22 13:05:50,501 Nanoget: Gathered all metrics of 16394 reads 2018-10-22 13:05:50,525 Calculated statistics 2018-10-22 13:05:50,525 Using sequenced read lengths for plotting. 2018-10-22 13:05:50,525 Processed the reads, optionally filtered. 16394 reads left 2018-10-22 13:05:50,526 Nanoplotter: Valid color #4CB391. 2018-10-22 13:05:50,526 Nanoplotter: Creating length plots for Read length. 2018-10-22 13:05:50,526 Nanoplotter: Using 16394 reads maximum of 116013bp. 2018-10-22 13:05:54,516 Created length plots 2018-10-22 13:05:54,516 Nanoplotter: Creating Read lengths vs Average read quality plots using statistics from 16394 reads. 2018-10-22 13:05:54,715 Unknown property height Traceback (most recent call last): File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/nanoplot/NanoPlot.py", line 92, in main plots = make_plots(datadf, settings) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/nanoplot/NanoPlot.py", line 328, in make_plots plot_settings=plot_settings) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/nanoplotter/nanoplotter_main.py", line 138, in scatter joint_kws={"s": 1}) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/seaborn/axisgrid.py", line 2247, in jointplot grid.plot_joint(plt.scatter, joint_kws) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/seaborn/axisgrid.py", line 1755, in plot_joint func(self.x, self.y, kwargs) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/matplotlib/pyplot.py", line 3470, in scatter edgecolors=edgecolors, data=data, *kwargs) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/matplotlib/init.py", line 1855, in inner return func(ax, args, **kwargs) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/matplotlib/axes/_axes.py", line 4323, in scatter collection.update(kwargs) File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/matplotlib/artist.py", line 888, in update for k, v in props.items()] File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/matplotlib/artist.py", line 888, in
for k, v in props.items()]
File "/software/anaconda3/5.2.0b/lib/python3.6/site-packages/matplotlib/artist.py", line 881, in _update_property
raise AttributeError('Unknown property %s' % k)
AttributeError: Unknown property height