logs
...
2023-08-23 23:52:50
Summarizing results...
Drawing # contigs metaQUAST summary plot...
saved to /media/sub/KINGSTON/301022/metaquast_report2/summary/PDF/num_contigs.pdf
Drawing Largest contig metaQUAST summary plot...
saved to /media/sub/KINGSTON/301022/metaquast_report2/summary/PDF/Largest_contig.pdf
Drawing Total length metaQUAST summary plot...
saved to /media/sub/KINGSTON/301022/metaquast_report2/summary/PDF/Total_length.pdf
Drawing Largest alignment metaQUAST summary plot...
saved to /media/sub/KINGSTON/301022/metaquast_report2/summary/PDF/Largest_alignment.pdf
Drawing Total aligned length metaQUAST summary plot...
saved to /media/sub/KINGSTON/301022/metaquast_report2/summary/PDF/Total_aligned_length.pdf
Drawing Total length (>= 1000 bp) metaQUAST summary plot...
[Errno 22] Invalid argument: '/media/sub/KINGSTON/301022/metaquast_report2/summary/coordTotallength(>=_1000_bp).json'
Traceback (most recent call last):
File "/home/sub/mambaforge/envs/quast/bin/metaquast.py", line 427, in
return_code = main(sys.argv[1:])
File "/home/sub/mambaforge/envs/quast/bin/metaquast.py", line 410, in main
create_meta_summary.do(html_summary_report_fpath, summary_output_dirpath, combined_output_dirpath,
File "/home/sub/mambaforge/envs/quast/lib/python3.10/site-packages/quast_libs/create_meta_summary.py", line 106, in do
plotter.draw_meta_summary_plot(html_fpath, output_dirpath, labels, cur_ref_names, results,
File "/home/sub/mambaforge/envs/quast/lib/python3.10/site-packages/quast_libs/plotter.py", line 684, in draw_meta_summary_plot
html_saver.save_meta_summary(html_fpath, output_dirpath, json_points_x, json_points_y,
File "/home/sub/mambaforge/envs/quast/lib/python3.10/site-packages/quast_libs/html_saver/html_saver.py", line 451, in save_meta_summary
json_fpath = json_saver.save_meta_summary(results_dirpath, coord_x, coord_y, name_coord, labels, refs)
File "/home/sub/mambaforge/envs/quast/lib/python3.10/site-packages/quast_libs/html_saver/json_saver.py", line 165, in save_meta_summary
return save(join(output_dirpath, coord_fn), {
File "/home/sub/mambaforge/envs/quast/lib/python3.10/site-packages/quast_libs/html_saver/json_saver.py", line 50, in save
json_file = open(fpath, 'w')
OSError: [Errno 22] Invalid argument: '/media/sub/KINGSTON/301022/metaquast_report2/summary/coordTotallength(>=_1000_bp).json'
ERROR! exception caught!
In case you have troubles running QUAST, you can write to quast.support@cab.spbu.ru
or report an issue on our GitHub repository https://github.com/ablab/quast/issues
Please provide us with quast.log file from the output directory.
(quast) sub@sub-Modern-15-A5M:/media/sub/KINGSTON/301022$ metaquast.py --fragmented -t 2 --memory-efficient -o metaquast_report2/ contigs.fasta
logs ... 2023-08-23 23:52:50 Summarizing results... Drawing # contigs metaQUAST summary plot... saved to /media/sub/KINGSTON/301022/metaquast_report2/summary/PDF/num_contigs.pdf Drawing Largest contig metaQUAST summary plot... saved to /media/sub/KINGSTON/301022/metaquast_report2/summary/PDF/Largest_contig.pdf Drawing Total length metaQUAST summary plot... saved to /media/sub/KINGSTON/301022/metaquast_report2/summary/PDF/Total_length.pdf Drawing Largest alignment metaQUAST summary plot... saved to /media/sub/KINGSTON/301022/metaquast_report2/summary/PDF/Largest_alignment.pdf Drawing Total aligned length metaQUAST summary plot... saved to /media/sub/KINGSTON/301022/metaquast_report2/summary/PDF/Total_aligned_length.pdf Drawing Total length (>= 1000 bp) metaQUAST summary plot...
[Errno 22] Invalid argument: '/media/sub/KINGSTON/301022/metaquast_report2/summary/coordTotallength(>=_1000_bp).json' Traceback (most recent call last): File "/home/sub/mambaforge/envs/quast/bin/metaquast.py", line 427, in
return_code = main(sys.argv[1:])
File "/home/sub/mambaforge/envs/quast/bin/metaquast.py", line 410, in main
create_meta_summary.do(html_summary_report_fpath, summary_output_dirpath, combined_output_dirpath,
File "/home/sub/mambaforge/envs/quast/lib/python3.10/site-packages/quast_libs/create_meta_summary.py", line 106, in do
plotter.draw_meta_summary_plot(html_fpath, output_dirpath, labels, cur_ref_names, results,
File "/home/sub/mambaforge/envs/quast/lib/python3.10/site-packages/quast_libs/plotter.py", line 684, in draw_meta_summary_plot
html_saver.save_meta_summary(html_fpath, output_dirpath, json_points_x, json_points_y,
File "/home/sub/mambaforge/envs/quast/lib/python3.10/site-packages/quast_libs/html_saver/html_saver.py", line 451, in save_meta_summary
json_fpath = json_saver.save_meta_summary(results_dirpath, coord_x, coord_y, name_coord, labels, refs)
File "/home/sub/mambaforge/envs/quast/lib/python3.10/site-packages/quast_libs/html_saver/json_saver.py", line 165, in save_meta_summary
return save(join(output_dirpath, coord_fn), {
File "/home/sub/mambaforge/envs/quast/lib/python3.10/site-packages/quast_libs/html_saver/json_saver.py", line 50, in save
json_file = open(fpath, 'w')
OSError: [Errno 22] Invalid argument: '/media/sub/KINGSTON/301022/metaquast_report2/summary/coordTotallength(>=_1000_bp).json'
ERROR! exception caught!
In case you have troubles running QUAST, you can write to quast.support@cab.spbu.ru or report an issue on our GitHub repository https://github.com/ablab/quast/issues Please provide us with quast.log file from the output directory.