Job ID = 7108987 SRX = SRX8036500 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 17992054 spots for SRR11458947/SRR11458947.sra Written 17992054 spots for SRR11458947/SRR11458947.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:13:05 17992054 reads; of these: 17992054 (100.00%) were paired; of these: 9784765 (54.38%) aligned concordantly 0 times 7239262 (40.24%) aligned concordantly exactly 1 time 968027 (5.38%) aligned concordantly >1 times ---- 9784765 pairs aligned concordantly 0 times; of these: 201986 (2.06%) aligned discordantly 1 time ---- 9582779 pairs aligned 0 times concordantly or discordantly; of these: 19165558 mates make up the pairs; of these: 19032975 (99.31%) aligned 0 times 63921 (0.33%) aligned exactly 1 time 68662 (0.36%) aligned >1 times 47.11% overall alignment rate Time searching: 00:13:05 Overall time: 00:13:05 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 16 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 1185055 / 8398676 = 0.1411 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:03:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Jul 2020 14:03:15: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:03:15: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:03:21: 1000000 INFO @ Wed, 22 Jul 2020 14:03:27: 2000000 INFO @ Wed, 22 Jul 2020 14:03:33: 3000000 INFO @ Wed, 22 Jul 2020 14:03:39: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:03:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Jul 2020 14:03:45: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:03:45: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:03:45: 5000000 INFO @ Wed, 22 Jul 2020 14:03:51: 1000000 INFO @ Wed, 22 Jul 2020 14:03:52: 6000000 INFO @ Wed, 22 Jul 2020 14:03:58: 2000000 INFO @ Wed, 22 Jul 2020 14:03:58: 7000000 INFO @ Wed, 22 Jul 2020 14:04:04: 3000000 INFO @ Wed, 22 Jul 2020 14:04:04: 8000000 INFO @ Wed, 22 Jul 2020 14:04:11: 4000000 INFO @ Wed, 22 Jul 2020 14:04:11: 9000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:04:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Jul 2020 14:04:15: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:04:15: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:04:17: 5000000 INFO @ Wed, 22 Jul 2020 14:04:17: 10000000 INFO @ Wed, 22 Jul 2020 14:04:21: 1000000 INFO @ Wed, 22 Jul 2020 14:04:24: 11000000 INFO @ Wed, 22 Jul 2020 14:04:24: 6000000 INFO @ Wed, 22 Jul 2020 14:04:28: 2000000 INFO @ Wed, 22 Jul 2020 14:04:30: 12000000 INFO @ Wed, 22 Jul 2020 14:04:30: 7000000 INFO @ Wed, 22 Jul 2020 14:04:35: 3000000 INFO @ Wed, 22 Jul 2020 14:04:36: 13000000 INFO @ Wed, 22 Jul 2020 14:04:37: 8000000 INFO @ Wed, 22 Jul 2020 14:04:41: 4000000 INFO @ Wed, 22 Jul 2020 14:04:43: 14000000 INFO @ Wed, 22 Jul 2020 14:04:43: 9000000 INFO @ Wed, 22 Jul 2020 14:04:46: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:04:46: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:04:46: #1 total tags in treatment: 7041147 INFO @ Wed, 22 Jul 2020 14:04:46: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:04:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:04:46: #1 tags after filtering in treatment: 5468721 INFO @ Wed, 22 Jul 2020 14:04:46: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 22 Jul 2020 14:04:46: #1 finished! INFO @ Wed, 22 Jul 2020 14:04:46: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:04:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:04:47: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:04:47: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 14:04:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:04:48: 5000000 INFO @ Wed, 22 Jul 2020 14:04:49: 10000000 INFO @ Wed, 22 Jul 2020 14:04:55: 6000000 INFO @ Wed, 22 Jul 2020 14:04:56: 11000000 INFO @ Wed, 22 Jul 2020 14:05:01: 7000000 INFO @ Wed, 22 Jul 2020 14:05:02: 12000000 INFO @ Wed, 22 Jul 2020 14:05:07: 8000000 INFO @ Wed, 22 Jul 2020 14:05:08: 13000000 INFO @ Wed, 22 Jul 2020 14:05:13: 9000000 INFO @ Wed, 22 Jul 2020 14:05:15: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:05:19: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:05:19: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:05:19: #1 total tags in treatment: 7041147 INFO @ Wed, 22 Jul 2020 14:05:19: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:05:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:05:19: #1 tags after filtering in treatment: 5468721 INFO @ Wed, 22 Jul 2020 14:05:19: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 22 Jul 2020 14:05:19: #1 finished! INFO @ Wed, 22 Jul 2020 14:05:19: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:05:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:05:19: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:05:19: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 14:05:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:05:20: 10000000 INFO @ Wed, 22 Jul 2020 14:05:26: 11000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:05:32: 12000000 INFO @ Wed, 22 Jul 2020 14:05:38: 13000000 INFO @ Wed, 22 Jul 2020 14:05:44: 14000000 INFO @ Wed, 22 Jul 2020 14:05:48: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:05:48: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:05:48: #1 total tags in treatment: 7041147 INFO @ Wed, 22 Jul 2020 14:05:48: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:05:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:05:48: #1 tags after filtering in treatment: 5468721 INFO @ Wed, 22 Jul 2020 14:05:48: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 22 Jul 2020 14:05:48: #1 finished! INFO @ Wed, 22 Jul 2020 14:05:48: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:05:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:05:48: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:05:48: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 14:05:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036500/SRX8036500.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling