Comparative-genomics~FastANI

FastANI is developed for fast alignment-free computation of whole-genome Average Nucleotide Identity (ANI). ANI is defined as mean nucleotide identity of orthologous gene pairs shared between two microbial genomes. FastANI supports pairwise comparison of both complete and draft genome assemblies.

input_1:reference genome file

input_1/xr1.hap1chr1-2.fa

>hap1chr1
CCCCTAACCCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCCTAACTCTAACCCCTAACCCGCTAACCTAACCTAACCCCTAACGAACTGTAAACCTTGCCCCTATTAATATAGGCGCTCGGTCGGTACCGACGGGCCGCGTCTCACGTGACCCTGGGCACTCCAAGGAAGTGCTGTACAGTTCATCACCGGGCCGCTGTGCGGTTCGCCTTCGGTCCGGTGACTAATTAGCAATGACATAAACCGATGCGATCGGTTCTCGGGCTTGCCGCTGACTGATGCCCGAGGACCCAGGTAACAAGTACTTCCCATGCTGTCAGGTAACAGCAAATCGGAATATTCTGTTTACTAACGTATAATCACAAGATAAGGCACTACGATCCCACACCAATGCTGTGGACCATCGTCTGTATCCATCGTGACCATGTGAACAAGCCCTGATGAGCCATATAAAAGGCGAAACGGGTTGGTACTGATAAGTTATCGGTACCCGTTGGCTTGTCTCGCCTCCTTTACCATCTTACAGCACCAGAGCCTCTTACGTCAGTCTTCAACGTCAACGCTCGCTTCGCTCGCTCGACGTTTCGACCACCCACCCCTAACCCACTTATCGTCAAGCACCCTTCCCAATAAGCACTTTGTTTTATCTTTCTCAAAATGTCTGACTTCTTTCGCGCACTTTCTCCGGCAATACAGTCCTTCGCCGGATCGTCCTCTGCGACCACCGCCTCCGACAAACGTTTGTCTGGAGCGTTTCATTTGCTTGCCTCGGCAGCGAATGTTAACGAGGTGTTGGCGACCCTTCCCGATACTTATCGGGACGTCCTTACTGGCCCCCTTCAAGGGGTCAGGGCTACTGCAAATAGACTTTGCAGTGCGCGGAAAAGCTTGGCAAGCTTGGAAGCGCATAAAGCCTCAGGGACGATACCTCCTTCGATCCCGAAGACTAGCTTAGATCTCCAGTTGACAGCGGAGTTTAAGACTTCGGCCGATGGCTTGACGGTTACTAAAGCCGTGTCCGATCTTAGTGCGGAGTTTCGTCAGAATCTCTTTGCACAACAGATCCTCGCCAAAAGTACCGAGATCAAGGTACTTGAATCGAAGATTACCCCTGATAAGCTCTTACGAGAGCTTTCCCCTATAATCACCTCGAACTACGCCTCTCTCAAGGAGCGTATGAAACGAGCTGTGTTTGAAGATGTGCAGATCTCAAACGATAGGGGACAACCCTCCGGTCAAACGGAGCTGCGGTTCGTCCGCTGGGAGGAATCTCCCGAACTCGAACCACAGTACAGGGACCTCCTTTCTAACTGCGTCCAGTACGCCTTCCGCATCATTCAGCTTGTCGAAGCCATGTTTGCGAAACAAGAAGGTAAACGAAAGGAAAAACGCGAACTCAAGGCTGCTGCGGACGTCGAAATGGCTGATCTCACTCAACCTGGACCGTCTCTCCAATCTACGATTGATAAAGCGGTCGCAGCCCAAGTTCGTGCTGCTCTTAAAGGAAAGAAACGTGATTCCTCAAGTACGTCTACTGTTCGTTTCGACAGTATGAATACTGACTTCTCTGCCCACAGGTTCTTCAAAGAAGAAAACATCGGGACGTCCAGAGAAGAAAAGCGCAGCCAAATCGTCCGCCGGAGTTCAAGTCGTTCAGACTCCCTCCGGCTCCCTCAAAGCGCTGCCAGCGCCTCGCGGCAAAAAGTACACCAAAAAGGCAACGCAAGGTGGAAAGACCGTGGAGAAAAAACCGGCTCGGACGAACAAGGCATCTTCATCGAACAAGGGCAAAGGAAAGAAGTGGTAAGTTTATCTTCCACACCACACTTTGATTGGTCAAAGTATGATTCTTACCCCGATGAATTACTGACAATGCCATACCCAGACGCTATACGAACTATACTATTACAAGTGCCATCGGACATTTTAGATGCCGCCGCCTACCGTAGTAGTGTACATATCGGACCGGGTGTATTTTTACCATTAGAATATCAAATGGACCTTAGCGTAGGACAAAATTACATGTTCCACTCTCCCCGCAATTCGCGGCTTCTTATTGAAGCCTGGAAAGATTTTGAATATCGCATTAAGTGGCGTATATTCTTTACGTTTAAGGATGGGCGCCAAGACGCCGACAATTACGATCCAGATTATGAAGTACCACGTGAGAGAACTAGCAAGGTACCTCAATTACCGCAATATATCGAATACGGTCTCAATATCGGCCAGGTTTACATCACTAAAATGATGGCCCTCATGCCGAAAGACCAGGAAGGGAGTGCTTTTAAGTCGCTGGCTCCCGATCCCAAACGTATTCGACAGTATCTTATCGACAACGATTACGTTGTTACTAATACCGATAAGAACTTAGGCATCGCGGTGTCTCAGCGCACCTGGATTGAAGAAAAATCACTTGCATTACTAAATAATCCTTCGGATTACGAGCGTCTCACGCCCGCCGAATGTAAGCGAATCTTGGATAAACAATGTACTCAGATGGAGCTATTATGCACGCTCGTCGATGAAGCTGAACCGGCCCTCGAGAAGCAGTTAAAGCGGTTTTTCCGACACAAAGTAACTTCTCCCTCCGGGTCGCACCATATACCTACCTTTTACTGTATCCCTAAGATACATAAAGAACCGGTAAAAGGCAGACCTATCATTCCTTGTCATAGTGCGATACAGAACCCGGCAGCTAAGTACGTTAGCAAAAAGCTTAAGCCCCTTATAGAGGCTGCGCCATCCATTATTCATGGATCCAAAGACTTGGCGATCAAGCTTAGCAAATTTAAACGAGATCCCAGACGACGTTTGTTCATAGTAACCGGAGACGTCGTGGCATTTT

input_2:target genome file

input_2/xr1.hap2chr1-2.fa

>hap2chr1
ACCCCTAACCCCTAACCCCCCTAACCCCTAACCCCTAACCCCTAACCCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCCCTAACCCCTAACCCCTAACCCCTAACCCCTAACCCGCTAACCTAACCTAACCCCTAACGAACTGTAAACCTTGCCCCTATTAATATAGGCGCTCGGTCGGTACCGACGGGCCGCGTCTCACGTGACCCTGGGCACTCCAAGGAAGTGCTGTACAGTTCATCACCGGGCCGCTGTGCGGTTCGCCTTCGGTCCGGTGACTAATTAGCAATGACATAAACCGATGCGATCGGTTCTCGGGCTTGCCGCTGACTGATGCCCGAGGACCCAGGTAACAAGTACTTCCCATGCTGTCAGGTAACAGCAAATCGGAATATTCTGTTTACTAACGTATAATCACAAGATAAGGCACTACGATCCCACACCAATGCTGTGGACCATCGTCTGTATCCATCGTGACCATGTGAACAAGCCCTGATGAGCCATATAAAAGGCGAAACGGGTTGGTACTGATAAGTTATCGGTACCCGTTGGCTTGTCTCGCCTCCTTTACCATCTTACAGCACCAGAGCCTCTTACGTCAGTCTTCAACGTCAACGCTCGCTTCGCTCGCTCGACGTTTCGACCACCCACCCCTAACCCTAACCCCTAACCCCTAACCCCTAACCCTAACCCCTATGATACATATCTTGACACCCAACCCCTAACCGCTAACTCTAACCCCTAACCCGCTAACCTAACCTAACCCCTAACGAACTGTAAACCTTGCCCCTATTAATATAGGCGCTCGTCGGTACCGACGGGCCGCGTCTCACGTGACCCTGGGCACTCCAAGGAAGTGCTGTACAGTTCATCACCGGGCCGCTGTGCGGTTCGCCTTCGGTCCGGTGACTAATTAGCAATGACATAAACCGATGCGATCGGTTCTCGGGCTTGCCGCTGACTGATGCCCGAGGACCCAGGTAACAAGTACTTCCCATGCTGTCAGGTAACAGCAAATCGGAATATTCTGTTTACTAACGTATAATCACAAGATAAGGCACTACGATCCCACACCAATGCTGTGGACCATCGTCTGTATCCATCGTGACCATGTGAACAAGCCCTGATGAGCCATATAAAAGGCGAAACGGGTTGGTACTGATAAGTTATCGGTACCCGTTGGCTTGTCTCGCCTCCTTTACCATCTTACAGCACCAGAGCCTCTTACGTCAGTCTTCAACGTCAACGCTCGCTTCGCTCGCTCGACGTTTCGACCACCCACCCCTAACCCACTTATCGTCAAGCACCCTTCCCAATAAGCACTTTGTTTTATCTTTCTCAAAATGTCTGACTTCTTTCGCGCACTTTCTCCGGCAATACAGTCCTTCGCCGGATCGTCCTCTGCGACCACCGCCTCCGACAAACGTTTGTCTGGAGCGTTTCATTTGCTTGCCTCGGCAGCGAATGTTAACGAGGTGTTGGCGACCCTTCCCGATACTTATCGGGACGTCCTTACTGGCCCCCTTCAAGGGGTCAGGGCTACTGCAAATAGACTTTGCAGTGCGCGGAAAAGCTTGGCAAGCTTGGAAGCGCATAAAGCCTCAGGGACGATACCTCCTTCGATCCCGAAGACTAGCTTAGATCTCCAGTTGACAGCGGAGTTTAAGACTTCGGCCGATGGCTTGACGGTTACTAAAGCCGTGTCCGATCTTAGTGCGGAGTTTCGTCAGAATCTCTTTGCACAACAGATCCTCGCCAAAAGTACCGAGATCAAGGTACTTGAATCGAAGATTACCCCTGATAAGCTCTTACGAGAGCTTTCCCCTATAATCACCTCGAACTACGCCTCTCTCAAGGAGCGTATGAAACGAGCTGTGTTTGAAGATGTGCAGATCTCAAACGATAGGGGACAACCCTCCGGTCAAACGGAGCTGCGGTTCGTCCGCTGGGAGGAATCTCCCGAACTCGAACCACAGTACAGGGACCTCCTTTCTAACTGCGTCCAGTACGCCTTCCGCATCATTCAGCTTGTCGAAGCCATGTTTGCGAAACAAGAAGGTAAACGAAAGGAAAAACGCGAACTCAAGGCTGCTGCGGACGTCGAAATGGCTGATCTCACTCAACCTGGACCGTCTCTCCAATCTACGATTGATAAAGCGGTCGCAGCCCAAGTTCGTGCTGCTCTTAAAGGAAAGAAACGTGATTCCTCAAGTACGTCTACTGTTCGTTTCGACAGTATGAATACTGACTTCTCTGCCCACAGGTTCTTCAAAGAAGAAAACATCGGGACGTCCAGAGAAGAAAAGCGCAGCCAAATCGTCCGCCGGAGTTCAAGTCGTTCAGACTCCCTCCGGCTCCCTCAAAGCGCTGCCAGCGCCTCGCGGCAAAAAGTACACCAAAAAGGCAACGCAAGGTGGAAAGACCGTGGAGAAAAAACCGGCTCGGACGAACAAGGCATCTTCATCGAACAAGGGCAAAGGAAAGAAGTGGTAAGTTTATCTTCCACACCACACTTTGATTGGTCAAAGTATGATTCTTACCCCGATGAATTACTGACAATGCCATACCCAGACGCTATACGAACTATACTATTACAAGTGCCATCGGACATTTTAGATGCCGCCGCCTACCGTAGTAGTGTACATATCGGACCGGGTGTATTTTTACCATTAGAATATCAAATGGACCTTAGCGTAGGACAAAATTACATGTTCCACTCTCCCCGCAATTCGCGGCTTCTTATTGAAGCCTGGAAAGATTTTGAATATCGCATTAAGTGGCGTATATTCTTTACGTTTAAGGATGGGCGCCAAGACGCCGACAATTACGATCCAGATTATGAAGTACCACGTGAGAGAACTAGCAAGGTACCTCAATTACCGCAATATATCGAATACGGTCTCAATATCGGCCAGGTTTACATCACTAAAATGATGGCCCTCATGCCGAAAG

Command

Comparative-genomics~FastANI -c 8 -m 32 input_1/xr1.hap1chr1-2.fa input_2/xr1.hap2chr1-2.fa

Output

fastANI.xr1.hap1chr1-2.fa.xr1.hap2chr1-2.fa.txt

input_1/xr1.hap1chr1-2.fa	input_2/xr1.hap2chr1-2.fa	98.3866	3162	3851

fastANI.xr1.hap1chr1-2.fa.xr1.hap2chr1-2.fa.txt.visual.pdf

view all outputs

Log

pp Comparative-genomics~FastANI -c 8 -m 32 input_1/xr1.hap1chr1-2.fa input_2/xr1.hap2chr1-2.fa
PID: 2643171
/home/yoshitake.kazutoshi/files/m256y/pp-dev/yoshitake/PortablePipeline/PortablePipeline/scripts/pp 'Comparative-genomics~FastANI' -c 8 -m 32 input_1/xr1.hap1chr1-2.fa input_2/xr1.hap2chr1-2.fa
Checking the realpath of input files.
1
script: /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/PortablePipeline/PortablePipeline/scripts/Comparative-genomics~FastANI
Containers: biocontainers/samtools:v1.7.0_cv4 c2997108/centos7:metacor7 centos:centos6 quay.io/biocontainers/fastani:1.34--h4dfc31f_4
using docker
++ set -o pipefail
+ set -eux
+ set -o pipefail
++ echo input_1/xr1.hap1chr1-2.fa
++ grep '[.]gz$'
++ wc -l
++ true
+ '[' 0 = 1 ']'
++ echo input_2/xr1.hap2chr1-2.fa
++ grep '[.]gz$'
++ wc -l
++ true
+ '[' 0 = 1 ']'
++ basename input_1/xr1.hap1chr1-2.fa
++ basename input_2/xr1.hap2chr1-2.fa
+ FUNC_RUN_DOCKER quay.io/biocontainers/fastani:1.34--h4dfc31f_4 fastANI -q input_1/xr1.hap1chr1-2.fa -r input_2/xr1.hap2chr1-2.fa -o fastANI.xr1.hap1chr1-2.fa.xr1.hap2chr1-2.fa.txt --visualize
+ PP_RUN_IMAGE=quay.io/biocontainers/fastani:1.34--h4dfc31f_4
+ shift
+ PP_RUN_DOCKER_CMD=("${@}")
++ date +%Y%m%d_%H%M%S_%3N
+ PPDOCNAME=pp20250303_003723_132_26838
+ echo pp20250303_003723_132_26838
++ id -u
++ id -g
+ docker run --name pp20250303_003723_132_26838 -v /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/Comparative-genomics~FastANI:/suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/Comparative-genomics~FastANI -w /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/Comparative-genomics~FastANI -v /suikou/files/m256y/yoshitake.kazutoshi:/suikou/files/m256y/yoshitake.kazutoshi -u 2007:600 -i --rm quay.io/biocontainers/fastani:1.34--h4dfc31f_4 fastANI -q input_1/xr1.hap1chr1-2.fa -r input_2/xr1.hap2chr1-2.fa -o fastANI.xr1.hap1chr1-2.fa.xr1.hap2chr1-2.fa.txt --visualize
>>>>>>>>>>>>>>>>>>
Reference = [input_2/xr1.hap2chr1-2.fa]
Query = [input_1/xr1.hap1chr1-2.fa]
Kmer size = 16
Fragment length = 3000
Threads = 1
ANI output file = fastANI.xr1.hap1chr1-2.fa.xr1.hap2chr1-2.fa.txt
Sanity Check  = 0
>>>>>>>>>>>>>>>>>>
INFO [thread 0], skch::main, Count of threads executing parallel_for : 1
INFO [thread 0], skch::Sketch::build, window size for minimizer sampling  = 24
INFO [thread 0], skch::Sketch::build, minimizers picked from reference = 909883
INFO [thread 0], skch::Sketch::index, unique minimizers = 773785
INFO [thread 0], skch::Sketch::computeFreqHist, Frequency histogram of minimizers = (1, 734039) ... (186, 1)
INFO [thread 0], skch::Sketch::computeFreqHist, consider all minimizers during lookup.
INFO [thread 0], skch::main, Time spent sketching the reference : 1.20904 sec
INFO [thread 0], skch::main, Start Map 1
INFO [thread 0], skch::main, Time spent mapping fragments in query #1 : 21.8703 sec
INFO [thread 0], skch::main, Time spent post mapping : 0.0148263 sec
INFO [thread 0], skch::main, ready to exit the loop
INFO, skch::main, parallel_for execution finished
+ mkdir -p reformat
+ DO_EXONERATE fastareformat input_1/xr1.hap1chr1-2.fa
+ sed 's/\r//g'
/suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/PortablePipeline/PortablePipeline/scripts/Comparative-genomics~FastANI: 行 33: DO_EXONERATE: コマンドが見つかりません
++ onerror 33
++ status=127
++ script=/suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/PortablePipeline/PortablePipeline/scripts/Comparative-genomics~FastANI
++ line=33
++ shift
++ set +x

------------------------------------------------------------
Error occured on /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/PortablePipeline/PortablePipeline/scripts/Comparative-genomics~FastANI [Line 33]: Status 127

PID: 2643177
User: yoshitake.kazutoshi
Current directory: /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/Comparative-genomics~FastANI
Command line: /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/PortablePipeline/PortablePipeline/scripts/Comparative-genomics~FastANI
------------------------------------------------------------


PID: 2658529
/home/yoshitake.kazutoshi/files/m256y/pp-dev/yoshitake/PortablePipeline/PortablePipeline/scripts/pp 'Comparative-genomics~FastANI' -c 8 -m 32 input_1/xr1.hap1chr1-2.fa input_2/xr1.hap2chr1-2.fa
Checking the realpath of input files.
1
script: /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/PortablePipeline/PortablePipeline/scripts/Comparative-genomics~FastANI
Containers: c2997108/centos7:metacor7 c2997108/ubuntu20:R-2_gplots_genoPlotR_2 centos:centos6 quay.io/biocontainers/fastani:1.34--h4dfc31f_4
using docker
++ set -o pipefail
+ set -eux
+ set -o pipefail
++ echo input_1/xr1.hap1chr1-2.fa
++ grep '[.]gz$'
++ wc -l
++ true
+ '[' 0 = 1 ']'
++ echo input_2/xr1.hap2chr1-2.fa
++ grep '[.]gz$'
++ wc -l
++ true
+ '[' 0 = 1 ']'
++ basename input_1/xr1.hap1chr1-2.fa
++ basename input_2/xr1.hap2chr1-2.fa
+ FUNC_RUN_DOCKER quay.io/biocontainers/fastani:1.34--h4dfc31f_4 fastANI -t 8 -q input_1/xr1.hap1chr1-2.fa -r input_2/xr1.hap2chr1-2.fa -o fastANI.xr1.hap1chr1-2.fa.xr1.hap2chr1-2.fa.txt --visualize
+ PP_RUN_IMAGE=quay.io/biocontainers/fastani:1.34--h4dfc31f_4
+ shift
+ PP_RUN_DOCKER_CMD=("${@}")
++ date +%Y%m%d_%H%M%S_%3N
+ PPDOCNAME=pp20250303_005201_081_11437
+ echo pp20250303_005201_081_11437
++ id -u
++ id -g
+ docker run --name pp20250303_005201_081_11437 -v /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/Comparative-genomics~FastANI:/suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/Comparative-genomics~FastANI -w /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/Comparative-genomics~FastANI -v /suikou/files/m256y/yoshitake.kazutoshi:/suikou/files/m256y/yoshitake.kazutoshi -u 2007:600 -i --rm quay.io/biocontainers/fastani:1.34--h4dfc31f_4 fastANI -t 8 -q input_1/xr1.hap1chr1-2.fa -r input_2/xr1.hap2chr1-2.fa -o fastANI.xr1.hap1chr1-2.fa.xr1.hap2chr1-2.fa.txt --visualize
>>>>>>>>>>>>>>>>>>
Reference = [input_2/xr1.hap2chr1-2.fa]
Query = [input_1/xr1.hap1chr1-2.fa]
Kmer size = 16
Fragment length = 3000
Threads = 8
ANI output file = fastANI.xr1.hap1chr1-2.fa.xr1.hap2chr1-2.fa.txt
Sanity Check  = 0
>>>>>>>>>>>>>>>>>>
INFO [thread 0], skch::main, Count of threads executing parallel_for : 8
INFO [thread 0], skch::Sketch::build, window size for minimizer sampling  = 24
INFO [thread 4], skch::main, ready to exit the loop
INFO [thread 0], skch::Sketch::build, minimizers picked from reference = 909883
INFO [thread 3], skch::main, ready to exit the loop
INFO [thread 2], skch::main, ready to exit the loop
INFO [thread 5], skch::main, ready to exit the loop
INFO [thread 6], skch::main, ready to exit the loop
INFO [thread 1], skch::main, ready to exit the loop
INFO [thread 7], skch::main, ready to exit the loop
INFO [thread 0], skch::Sketch::index, unique minimizers = 773785
INFO [thread 0], skch::Sketch::computeFreqHist, Frequency histogram of minimizers = (1, 734039) ... (186, 1)
INFO [thread 0], skch::Sketch::computeFreqHist, consider all minimizers during lookup.
INFO [thread 0], skch::main, Time spent sketching the reference : 1.52038 sec
INFO [thread 0], skch::main, Start Map 1
INFO [thread 0], skch::main, Time spent mapping fragments in query #1 : 22.4838 sec
INFO [thread 0], skch::main, Time spent post mapping : 0.0140316 sec
INFO [thread 0], skch::main, ready to exit the loop
INFO, skch::main, parallel_for execution finished
++ basename input_1/xr1.hap1chr1-2.fa
++ basename input_2/xr1.hap2chr1-2.fa
+ FUNC_RUN_DOCKER c2997108/ubuntu20:R-2_gplots_genoPlotR_2 Rscript /usr/local/FastANI/scripts/visualize.R input_1/xr1.hap1chr1-2.fa input_2/xr1.hap2chr1-2.fa fastANI.xr1.hap1chr1-2.fa.xr1.hap2chr1-2.fa.txt.visual
+ PP_RUN_IMAGE=c2997108/ubuntu20:R-2_gplots_genoPlotR_2
+ shift
+ PP_RUN_DOCKER_CMD=("${@}")
++ date +%Y%m%d_%H%M%S_%3N
+ PPDOCNAME=pp20250303_005226_504_21727
+ echo pp20250303_005226_504_21727
++ id -u
++ id -g
+ docker run --name pp20250303_005226_504_21727 -v /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/Comparative-genomics~FastANI:/suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/Comparative-genomics~FastANI -w /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/Comparative-genomics~FastANI -v /suikou/files/m256y/yoshitake.kazutoshi:/suikou/files/m256y/yoshitake.kazutoshi -u 2007:600 -i --rm c2997108/ubuntu20:R-2_gplots_genoPlotR_2 Rscript /usr/local/FastANI/scripts/visualize.R input_1/xr1.hap1chr1-2.fa input_2/xr1.hap2chr1-2.fa fastANI.xr1.hap1chr1-2.fa.xr1.hap2chr1-2.fa.txt.visual
Loading required package: ade4
Loading required package: grid
null device
1
+ post_processing
+ '[' 1 = 1 ']'
+ rm -f /home/yoshitake.kazutoshi/files/m256y/pp-dev/yoshitake/test/Comparative-genomics~FastANI/pp-singularity-flag
+ '[' '' = y ']'
+ echo 0
+ exit