Job ID = 7107242 SRX = SRX6911547 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 18121591 spots for SRR10191174/SRR10191174.sra Written 18121591 spots for SRR10191174/SRR10191174.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: 00:14:28 18121591 reads; of these: 18121591 (100.00%) were paired; of these: 8522955 (47.03%) aligned concordantly 0 times 7160752 (39.52%) aligned concordantly exactly 1 time 2437884 (13.45%) aligned concordantly >1 times ---- 8522955 pairs aligned concordantly 0 times; of these: 1243568 (14.59%) aligned discordantly 1 time ---- 7279387 pairs aligned 0 times concordantly or discordantly; of these: 14558774 mates make up the pairs; of these: 13206438 (90.71%) aligned 0 times 548882 (3.77%) aligned exactly 1 time 803454 (5.52%) aligned >1 times 63.56% overall alignment rate Time searching: 00:14:28 Overall time: 00:14:28 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 12 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] 1663664 / 10838803 = 0.1535 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 13:26:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.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 13:26:34: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:26:34: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:26:40: 1000000 INFO @ Wed, 22 Jul 2020 13:26:45: 2000000 INFO @ Wed, 22 Jul 2020 13:26:51: 3000000 INFO @ Wed, 22 Jul 2020 13:26:56: 4000000 INFO @ Wed, 22 Jul 2020 13:27:02: 5000000 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 13:27:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.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 13:27:04: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:27:04: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:27:07: 6000000 INFO @ Wed, 22 Jul 2020 13:27:10: 1000000 INFO @ Wed, 22 Jul 2020 13:27:13: 7000000 INFO @ Wed, 22 Jul 2020 13:27:16: 2000000 INFO @ Wed, 22 Jul 2020 13:27:19: 8000000 INFO @ Wed, 22 Jul 2020 13:27:21: 3000000 INFO @ Wed, 22 Jul 2020 13:27:24: 9000000 INFO @ Wed, 22 Jul 2020 13:27:27: 4000000 INFO @ Wed, 22 Jul 2020 13:27:30: 10000000 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 13:27:32: 5000000 INFO @ Wed, 22 Jul 2020 13:27:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.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 13:27:34: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:27:34: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:27:36: 11000000 INFO @ Wed, 22 Jul 2020 13:27:38: 6000000 INFO @ Wed, 22 Jul 2020 13:27:40: 1000000 INFO @ Wed, 22 Jul 2020 13:27:41: 12000000 INFO @ Wed, 22 Jul 2020 13:27:44: 7000000 INFO @ Wed, 22 Jul 2020 13:27:46: 2000000 INFO @ Wed, 22 Jul 2020 13:27:47: 13000000 INFO @ Wed, 22 Jul 2020 13:27:50: 8000000 INFO @ Wed, 22 Jul 2020 13:27:51: 3000000 INFO @ Wed, 22 Jul 2020 13:27:52: 14000000 INFO @ Wed, 22 Jul 2020 13:27:55: 9000000 INFO @ Wed, 22 Jul 2020 13:27:57: 4000000 INFO @ Wed, 22 Jul 2020 13:27:58: 15000000 INFO @ Wed, 22 Jul 2020 13:28:01: 10000000 INFO @ Wed, 22 Jul 2020 13:28:02: 5000000 INFO @ Wed, 22 Jul 2020 13:28:04: 16000000 INFO @ Wed, 22 Jul 2020 13:28:06: 11000000 INFO @ Wed, 22 Jul 2020 13:28:08: 6000000 INFO @ Wed, 22 Jul 2020 13:28:09: 17000000 INFO @ Wed, 22 Jul 2020 13:28:12: 12000000 INFO @ Wed, 22 Jul 2020 13:28:14: 7000000 INFO @ Wed, 22 Jul 2020 13:28:15: 18000000 INFO @ Wed, 22 Jul 2020 13:28:17: 13000000 INFO @ Wed, 22 Jul 2020 13:28:19: 8000000 INFO @ Wed, 22 Jul 2020 13:28:20: 19000000 INFO @ Wed, 22 Jul 2020 13:28:22: 14000000 INFO @ Wed, 22 Jul 2020 13:28:24: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:28:24: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:28:24: #1 total tags in treatment: 8017560 INFO @ Wed, 22 Jul 2020 13:28:24: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:28:24: #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 13:28:24: #1 tags after filtering in treatment: 5460464 INFO @ Wed, 22 Jul 2020 13:28:24: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 22 Jul 2020 13:28:24: #1 finished! INFO @ Wed, 22 Jul 2020 13:28:24: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:28:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:28:25: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:28:25: 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 13:28:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.05_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/SRX6911547/SRX6911547.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:28:25: 9000000 INFO @ Wed, 22 Jul 2020 13:28:28: 15000000 INFO @ Wed, 22 Jul 2020 13:28:30: 10000000 INFO @ Wed, 22 Jul 2020 13:28:33: 16000000 INFO @ Wed, 22 Jul 2020 13:28:36: 11000000 INFO @ Wed, 22 Jul 2020 13:28:39: 17000000 INFO @ Wed, 22 Jul 2020 13:28:41: 12000000 INFO @ Wed, 22 Jul 2020 13:28:45: 18000000 INFO @ Wed, 22 Jul 2020 13:28:46: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:28:50: 19000000 INFO @ Wed, 22 Jul 2020 13:28:52: 14000000 INFO @ Wed, 22 Jul 2020 13:28:54: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:28:54: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:28:54: #1 total tags in treatment: 8017560 INFO @ Wed, 22 Jul 2020 13:28:54: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:28:54: #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 13:28:54: #1 tags after filtering in treatment: 5460464 INFO @ Wed, 22 Jul 2020 13:28:54: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 22 Jul 2020 13:28:54: #1 finished! INFO @ Wed, 22 Jul 2020 13:28:54: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:28:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:28:55: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:28:55: 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 13:28:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.10_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/SRX6911547/SRX6911547.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:28:57: 15000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:29:03: 16000000 INFO @ Wed, 22 Jul 2020 13:29:08: 17000000 INFO @ Wed, 22 Jul 2020 13:29:13: 18000000 INFO @ Wed, 22 Jul 2020 13:29:19: 19000000 INFO @ Wed, 22 Jul 2020 13:29:23: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:29:23: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:29:23: #1 total tags in treatment: 8017560 INFO @ Wed, 22 Jul 2020 13:29:23: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:29:23: #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 13:29:23: #1 tags after filtering in treatment: 5460464 INFO @ Wed, 22 Jul 2020 13:29:23: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 22 Jul 2020 13:29:23: #1 finished! INFO @ Wed, 22 Jul 2020 13:29:23: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:29:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:29:23: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:29:23: 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 13:29:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.20_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/SRX6911547/SRX6911547.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911547/SRX6911547.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling