Job ID = 7110387 SRX = SRX8053693 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 25272294 spots for SRR11477534/SRR11477534.sra Written 25272294 spots for SRR11477534/SRR11477534.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: 00:15:04 25272294 reads; of these: 25272294 (100.00%) were paired; of these: 2892687 (11.45%) aligned concordantly 0 times 17198976 (68.05%) aligned concordantly exactly 1 time 5180631 (20.50%) aligned concordantly >1 times ---- 2892687 pairs aligned concordantly 0 times; of these: 897555 (31.03%) aligned discordantly 1 time ---- 1995132 pairs aligned 0 times concordantly or discordantly; of these: 3990264 mates make up the pairs; of these: 2613581 (65.50%) aligned 0 times 626169 (15.69%) aligned exactly 1 time 750514 (18.81%) aligned >1 times 94.83% overall alignment rate Time searching: 00:15:04 Overall time: 00:15:04 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 20 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] 4952681 / 23087961 = 0.2145 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 14:26:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.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 14:26:03: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:26:03: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:26:08: 1000000 INFO @ Wed, 22 Jul 2020 14:26:14: 2000000 INFO @ Wed, 22 Jul 2020 14:26:19: 3000000 INFO @ Wed, 22 Jul 2020 14:26:25: 4000000 INFO @ Wed, 22 Jul 2020 14:26:30: 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 14:26:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.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 14:26:33: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:26:33: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:26:37: 6000000 INFO @ Wed, 22 Jul 2020 14:26:39: 1000000 INFO @ Wed, 22 Jul 2020 14:26:43: 7000000 INFO @ Wed, 22 Jul 2020 14:26:46: 2000000 INFO @ Wed, 22 Jul 2020 14:26:50: 8000000 INFO @ Wed, 22 Jul 2020 14:26:52: 3000000 INFO @ Wed, 22 Jul 2020 14:26:57: 9000000 INFO @ Wed, 22 Jul 2020 14:26:59: 4000000 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 14:27:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.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 14:27:02: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:27:02: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:27:03: 10000000 INFO @ Wed, 22 Jul 2020 14:27:06: 5000000 INFO @ Wed, 22 Jul 2020 14:27:10: 1000000 INFO @ Wed, 22 Jul 2020 14:27:10: 11000000 INFO @ Wed, 22 Jul 2020 14:27:13: 6000000 INFO @ Wed, 22 Jul 2020 14:27:16: 2000000 INFO @ Wed, 22 Jul 2020 14:27:16: 12000000 INFO @ Wed, 22 Jul 2020 14:27:20: 7000000 INFO @ Wed, 22 Jul 2020 14:27:23: 3000000 INFO @ Wed, 22 Jul 2020 14:27:23: 13000000 INFO @ Wed, 22 Jul 2020 14:27:27: 8000000 INFO @ Wed, 22 Jul 2020 14:27:30: 14000000 INFO @ Wed, 22 Jul 2020 14:27:30: 4000000 INFO @ Wed, 22 Jul 2020 14:27:33: 9000000 INFO @ Wed, 22 Jul 2020 14:27:36: 15000000 INFO @ Wed, 22 Jul 2020 14:27:37: 5000000 INFO @ Wed, 22 Jul 2020 14:27:40: 10000000 INFO @ Wed, 22 Jul 2020 14:27:43: 16000000 INFO @ Wed, 22 Jul 2020 14:27:44: 6000000 INFO @ Wed, 22 Jul 2020 14:27:47: 11000000 INFO @ Wed, 22 Jul 2020 14:27:50: 17000000 INFO @ Wed, 22 Jul 2020 14:27:51: 7000000 INFO @ Wed, 22 Jul 2020 14:27:55: 12000000 INFO @ Wed, 22 Jul 2020 14:27:56: 18000000 INFO @ Wed, 22 Jul 2020 14:27:58: 8000000 INFO @ Wed, 22 Jul 2020 14:28:02: 13000000 INFO @ Wed, 22 Jul 2020 14:28:03: 19000000 INFO @ Wed, 22 Jul 2020 14:28:05: 9000000 INFO @ Wed, 22 Jul 2020 14:28:09: 14000000 INFO @ Wed, 22 Jul 2020 14:28:10: 20000000 INFO @ Wed, 22 Jul 2020 14:28:12: 10000000 INFO @ Wed, 22 Jul 2020 14:28:16: 15000000 INFO @ Wed, 22 Jul 2020 14:28:16: 21000000 INFO @ Wed, 22 Jul 2020 14:28:20: 11000000 INFO @ Wed, 22 Jul 2020 14:28:22: 16000000 INFO @ Wed, 22 Jul 2020 14:28:23: 22000000 INFO @ Wed, 22 Jul 2020 14:28:27: 12000000 INFO @ Wed, 22 Jul 2020 14:28:29: 17000000 INFO @ Wed, 22 Jul 2020 14:28:30: 23000000 INFO @ Wed, 22 Jul 2020 14:28:34: 13000000 INFO @ Wed, 22 Jul 2020 14:28:36: 24000000 INFO @ Wed, 22 Jul 2020 14:28:36: 18000000 INFO @ Wed, 22 Jul 2020 14:28:41: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:28:43: 19000000 INFO @ Wed, 22 Jul 2020 14:28:43: 25000000 INFO @ Wed, 22 Jul 2020 14:28:48: 15000000 INFO @ Wed, 22 Jul 2020 14:28:50: 26000000 INFO @ Wed, 22 Jul 2020 14:28:50: 20000000 INFO @ Wed, 22 Jul 2020 14:28:55: 16000000 INFO @ Wed, 22 Jul 2020 14:28:57: 27000000 INFO @ Wed, 22 Jul 2020 14:28:57: 21000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:29:02: 17000000 INFO @ Wed, 22 Jul 2020 14:29:03: 28000000 INFO @ Wed, 22 Jul 2020 14:29:04: 22000000 INFO @ Wed, 22 Jul 2020 14:29:09: 18000000 INFO @ Wed, 22 Jul 2020 14:29:10: 29000000 INFO @ Wed, 22 Jul 2020 14:29:11: 23000000 INFO @ Wed, 22 Jul 2020 14:29:16: 30000000 INFO @ Wed, 22 Jul 2020 14:29:17: 19000000 INFO @ Wed, 22 Jul 2020 14:29:18: 24000000 INFO @ Wed, 22 Jul 2020 14:29:23: 31000000 INFO @ Wed, 22 Jul 2020 14:29:24: 20000000 INFO @ Wed, 22 Jul 2020 14:29:25: 25000000 INFO @ Wed, 22 Jul 2020 14:29:29: 32000000 INFO @ Wed, 22 Jul 2020 14:29:31: 21000000 INFO @ Wed, 22 Jul 2020 14:29:32: 26000000 INFO @ Wed, 22 Jul 2020 14:29:36: 33000000 INFO @ Wed, 22 Jul 2020 14:29:38: 22000000 INFO @ Wed, 22 Jul 2020 14:29:38: 27000000 INFO @ Wed, 22 Jul 2020 14:29:42: 34000000 INFO @ Wed, 22 Jul 2020 14:29:45: 23000000 INFO @ Wed, 22 Jul 2020 14:29:45: 28000000 INFO @ Wed, 22 Jul 2020 14:29:48: 35000000 INFO @ Wed, 22 Jul 2020 14:29:52: 29000000 INFO @ Wed, 22 Jul 2020 14:29:52: 24000000 INFO @ Wed, 22 Jul 2020 14:29:55: 36000000 INFO @ Wed, 22 Jul 2020 14:29:59: 25000000 INFO @ Wed, 22 Jul 2020 14:29:59: 30000000 INFO @ Wed, 22 Jul 2020 14:30:01: 37000000 INFO @ Wed, 22 Jul 2020 14:30:06: 26000000 INFO @ Wed, 22 Jul 2020 14:30:06: 31000000 INFO @ Wed, 22 Jul 2020 14:30:07: 38000000 INFO @ Wed, 22 Jul 2020 14:30:08: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 14:30:08: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 14:30:08: #1 total tags in treatment: 17542447 INFO @ Wed, 22 Jul 2020 14:30:08: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:30:08: #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 14:30:08: #1 tags after filtering in treatment: 10811020 INFO @ Wed, 22 Jul 2020 14:30:08: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Jul 2020 14:30:08: #1 finished! INFO @ Wed, 22 Jul 2020 14:30:08: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:30:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:30:09: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:30:09: 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 14:30:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.05_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/SRX8053693/SRX8053693.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:30:13: 27000000 INFO @ Wed, 22 Jul 2020 14:30:13: 32000000 INFO @ Wed, 22 Jul 2020 14:30:19: 28000000 INFO @ Wed, 22 Jul 2020 14:30:20: 33000000 INFO @ Wed, 22 Jul 2020 14:30:26: 29000000 INFO @ Wed, 22 Jul 2020 14:30:27: 34000000 INFO @ Wed, 22 Jul 2020 14:30:33: 30000000 INFO @ Wed, 22 Jul 2020 14:30:34: 35000000 INFO @ Wed, 22 Jul 2020 14:30:40: 36000000 INFO @ Wed, 22 Jul 2020 14:30:40: 31000000 INFO @ Wed, 22 Jul 2020 14:30:47: 32000000 INFO @ Wed, 22 Jul 2020 14:30:47: 37000000 INFO @ Wed, 22 Jul 2020 14:30:54: 38000000 INFO @ Wed, 22 Jul 2020 14:30:54: 33000000 INFO @ Wed, 22 Jul 2020 14:30:54: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 14:30:54: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 14:30:54: #1 total tags in treatment: 17542447 INFO @ Wed, 22 Jul 2020 14:30:54: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:30:54: #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 14:30:55: #1 tags after filtering in treatment: 10811020 INFO @ Wed, 22 Jul 2020 14:30:55: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Jul 2020 14:30:55: #1 finished! INFO @ Wed, 22 Jul 2020 14:30:55: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:30:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:30:55: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:30:55: 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 14:30:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.10_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/SRX8053693/SRX8053693.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:31:01: 34000000 INFO @ Wed, 22 Jul 2020 14:31:07: 35000000 INFO @ Wed, 22 Jul 2020 14:31:13: 36000000 INFO @ Wed, 22 Jul 2020 14:31:20: 37000000 INFO @ Wed, 22 Jul 2020 14:31:26: 38000000 INFO @ Wed, 22 Jul 2020 14:31:26: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 14:31:26: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 14:31:26: #1 total tags in treatment: 17542447 INFO @ Wed, 22 Jul 2020 14:31:26: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:31:26: #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 14:31:26: #1 tags after filtering in treatment: 10811020 INFO @ Wed, 22 Jul 2020 14:31:26: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Jul 2020 14:31:26: #1 finished! INFO @ Wed, 22 Jul 2020 14:31:26: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:31:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:31:27: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:31:27: 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 14:31:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.20_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/SRX8053693/SRX8053693.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053693/SRX8053693.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling