<commit_before># Long
~/bossmachine/bin/nanomachine -d ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160729_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_95274_ch238_read274_strand.fast5 -f ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160729_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_95274_ch238_read274_strand.fastq -v8 -w .1

# basecall long
~/bossmachine/bin/nanomachine -d ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160729_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_95274_ch238_read274_strand.fast5 -v8 -b


# Short
~/bossmachine/bin/nanomachine -d ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160728_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_66703_ch178_read123_strand.fast5 -f ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160728_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_66703_ch178_read123_strand.fastq -v8


# No HDF5 libraries
~/bossmachine/bin/nanomachine -r ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160728_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_66703_ch178_read123_strand.txt -f ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160728_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_66703_ch178_read123_strand.fastq -v8



# Basecalling test
~/bossmachine/src/nano/node/events2model.js -f ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160729_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_95274_ch238_read274_strand.fast5<commit_msg>README.md<commit_after># Long
~/bossmachine/bin/nanomachine -d ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160729_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_95274_ch238_read274_strand.fast5 -f ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160729_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_95274_ch238_read274_strand.fastq -v8 -w .1

# basecall long
~/bossmachine/bin/nanomachine -d ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160729_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_95274_ch238_read274_strand.fast5 -v8 -b


# Short
~/bossmachine/bin/nanomachine -d ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160728_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_66703_ch178_read123_strand.fast5 -f ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160728_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_66703_ch178_read123_strand.fastq -v8


# No HDF5 libraries
~/bossmachine/bin/nanomachine -r ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160728_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_66703_ch178_read123_strand.txt -f ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160728_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_66703_ch178_read123_strand.fastq -v8



# Basecalling test
~/bossmachine/src/nano/node/events2model.js -f ~/Dropbox/Projects/MinION/loman-r9/nanopore2_20160729_FNFAB24462_MN17024_sequencing_run_E_coli_K12_1D_R9_SpotOn_2_95274_ch238_read274_strand.fast5 >long.json
{'fraction_non_alphanumeric': 0.07460689193710271, 'fraction_numerical': 0.20006691201070592, 'mean_word_length': 9.678571428571429, 'pattern_counts': {'":': 0, '<': 3, '<?xml version=': 0, '>': 4, 'https://': 0, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '2848153', 'n_tokens_mistral': 1806, 'n_tokens_neox': 1419, 'n_words': 76}