Project ..........................................................: mock-env-aligned
Run date .........................................................: 26 Jul 13 13:45:28
Library version ..................................................: 0.96
multi_threaded ...................................................: True
Input alignment ..................................................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned.fasta
Input entropy file ...............................................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned.fasta-ENTROPY
Mapping file .....................................................: None
Output directory .................................................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0
tmp_directory ....................................................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0/TMP
Extraction info output file ......................................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0/RUNINFO
Quality scores were provided .....................................: False
Command line .....................................................: /Users/meren/Desktop/MBL/Oligotyping/oligotyping/oligotype mock-env-aligned.fasta mock-env-aligned.fasta-ENTROPY -c 2 -a 1.0 -s 1 --gen-html
Number of sequences analyzed .....................................: 2,500
Number of characters in each alignment ...........................: 246
Number of entropy components to be selected automatically ........: 2
Number of entropy components chosen by the user ..................: 0
Oligotype sets were requested to be generated ....................: False
Skip performing basic analyses ...................................: False
Min number of samples oligotype expected to appear ...............: 1
Min % abundance of oligotype in at least one sample ..............: 1.0
Min total abundance of oligotype in all samples ..................: 0
Min substantive abundance of an oligotype (-M) ...................: 0
Base locations of interest in the alignment ......................: 16, 62
Number of samples found ..........................................: 10
Number of unique oligotypes (raw) ................................: 8
Oligotypes after "min number of samples" elimination .............: 8
Oligotypes after "min % abundance in a sample" elimination .......: 2
Number of sequences represented after quality filtering ..........: 2,478
Random colors for oligotypes .....................................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0/COLORS
FASTA file for abundant oligotypes ...............................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0/OLIGOS.fasta
NEXUS file for abundant oligotypes ...............................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0/OLIGOS.nexus
Environment file .................................................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0/ENVIRONMENT.txt
Sample/oligotype abundance data matrix (counts) ..................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0/MATRIX-COUNT.txt
Sample/oligotype abundance data matrix (percents) ................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0/MATRIX-PERCENT.txt
Read distribution among samples table ............................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0/READ-DISTRIBUTION.txt
Representative sequences for oligotypes directory ................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0/OLIGO-REPRESENTATIVES
Representative sequences per oligotype ...........................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0/OLIGO-REPRESENTATIVES.fasta
figures_dict_file_path ...........................................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0/FIGURES.cPickle
GEXF file for network analysis ...................................: /Users/meren/Desktop/MBL/Oligotyping/sample-run/mock-env-aligned-c2-s1-a1.0-A0-M0/NETWORK.gexf
End of run .......................................................: 26 Jul 13 13:45:57