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And the results of nanocall basecalling(output.fa) using our sequencing fast5 file (I choosed the local basecalling in the MinKNOW, the test fast5 file directory is /nanopore-datas/20170907_1414_FAH10633-RS-20170907/fast5/pass/0/) is null.
The log file just as below:
= main.2 nanocall.cpp:913 main program: nanocall
= main.2 nanocall.cpp:914 main version: 2f92983
= main.2 nanocall.cpp:915 main args: /analysis/software_han/1-data/nanopore-datas/20170907_1414_FAH10633-RS-20170907/fast5/pass/0/DESKTOP_QKGLFDD_20170907_FAH10633_MN20782_sequencing_run_FAH10633_RS_20170907_53523_read_1023_ch_3_strand.fast5
= main.2 nanocall.cpp:916 main num_threads=1
= main.2 nanocall.cpp:930 main eventdetection_group=smallest
= main.2 nanocall.cpp:971 main ed_event_trimming: sq_start=50 sq_end=50 hp_start=50 hp_end=50
= main.2 nanocall.cpp:979 main hairpin_detection: abasic_level_top_percent=1 abasic_level_top_offset=0 hairpin_island_window_size=10 hairpin_island_window_load=5
= main.2 nanocall.cpp:1063 main train=1
= main.2 nanocall.cpp:1066 main train_scaling=1
= main.2 nanocall.cpp:1067 main train_transitions=1
= main.2 nanocall.cpp:1070 main double_strands_scaling=1
= main.2 nanocall.cpp:1071 main scaling_num_events=200
= main.2 nanocall.cpp:1072 main scaling_max_rounds=10
= main.2 nanocall.cpp:1073 main scaling_min_progress=1
= main.2 nanocall.cpp:1074 main scaling_select_threshold=20
= main.2 nanocall.cpp:1075 main train_drift=0
= main.2 nanocall.cpp:1078 main basecall=1
= main.2 nanocall.cpp:165 init_models loaded builtin module [r9.t.007.ont.model] for strand [0] statistics [mean=87.2151, stdv=12.9112]
= main.2 nanocall.cpp:165 init_models loaded builtin module [r9.c.p1.007.ont.model] for strand [1] statistics [mean=87.2151, stdv=12.9112]
= main.2 nanocall.cpp:165 init_models loaded builtin module [r9.c.p2.007.ont.model] for strand [1] statistics [mean=92.5249, stdv=13.1801]
= main.2 nanocall.cpp:190 init_transitions init_state_transitions pr_skip=[0.3], pr_stay=[0.1]
= main.2 nanocall.cpp:228 init_files adding input file [/analysis/software_han/1-data/nanopore-datas/20170907_1414_FAH10633-RS-20170907/fast5/pass/0/DESKTOP_QKGLFDD_20170907_FAH10633_MN20782_sequencing_run_FAH10633_RS_20170907_53523_read_1023_ch_3_strand.fast5]
= Fast5_Summary.2 Fast5_Summary.hpp:176 summarize /analysis/software_han/1-data/nanopore-datas/20170907_1414_FAH10633-RS-20170907/fast5/pass/0/DESKTOP_QKGLFDD_20170907_FAH10633_MN20782_sequencing_run_FAH10633_RS_20170907_53523_read_1023_ch_3_strand.fast5: missing eventdetection events
= main.2 nanocall.cpp:270 init_reads summary: [base_file_name=DESKTOP_QKGLFDD_20170907_FAH10633_MN20782_sequencing_run_FAH10633_RS_20170907_53523_read_1023_ch_3_strand valid=1 num_ed_events=0]
= main.2 Parameter_Trainer.hpp:56 init using [2160] states for state trainsition training
= main.2 nanocall.cpp:581 train_reads training user_cpu_secs=0
= main.2 nanocall.cpp:868 basecall_reads basecalling user_cpu_secs=0
There are no error when running...
So what the wrong here? Can you help me?
Looking for your reply. Thank you very much!
Best wishes,
myshu
The text was updated successfully, but these errors were encountered:
Hi,
I installed the nanocall on Ubuntu 16.04. The command I used just as below:
And the results of nanocall basecalling(
output.fa
) using our sequencing fast5 file (I choosed the local basecalling in the MinKNOW, the test fast5 file directory is/nanopore-datas/20170907_1414_FAH10633-RS-20170907/fast5/pass/0/
) is null.The log file just as below:
There are no error when running...
So what the wrong here? Can you help me?
Looking for your reply. Thank you very much!
Best wishes,
myshu
The text was updated successfully, but these errors were encountered: