Job ID = 10223989 SRX = SRX7973302 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 32606732 spots for SRR11394485/SRR11394485.sra Written 32606732 spots for SRR11394485/SRR11394485.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: 00:13:35 32606732 reads; of these: 32606732 (100.00%) were paired; of these: 4631914 (14.21%) aligned concordantly 0 times 25344232 (77.73%) aligned concordantly exactly 1 time 2630586 (8.07%) aligned concordantly >1 times ---- 4631914 pairs aligned concordantly 0 times; of these: 1032039 (22.28%) aligned discordantly 1 time ---- 3599875 pairs aligned 0 times concordantly or discordantly; of these: 7199750 mates make up the pairs; of these: 6664369 (92.56%) aligned 0 times 274108 (3.81%) aligned exactly 1 time 261273 (3.63%) aligned >1 times 89.78% overall alignment rate Time searching: 00:13:35 Overall time: 00:13:35 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] 1047121 / 28994870 = 0.0361 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 @ Fri, 16 Oct 2020 09:29:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.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 @ Fri, 16 Oct 2020 09:29:20: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:29:20: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:29:24: 1000000 INFO @ Fri, 16 Oct 2020 09:29:29: 2000000 INFO @ Fri, 16 Oct 2020 09:29:33: 3000000 INFO @ Fri, 16 Oct 2020 09:29:37: 4000000 INFO @ Fri, 16 Oct 2020 09:29:42: 5000000 INFO @ Fri, 16 Oct 2020 09:29:46: 6000000 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 @ Fri, 16 Oct 2020 09:29:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.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 @ Fri, 16 Oct 2020 09:29:48: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:29:48: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:29:51: 7000000 INFO @ Fri, 16 Oct 2020 09:29:54: 1000000 INFO @ Fri, 16 Oct 2020 09:29:56: 8000000 INFO @ Fri, 16 Oct 2020 09:30:00: 2000000 INFO @ Fri, 16 Oct 2020 09:30:02: 9000000 INFO @ Fri, 16 Oct 2020 09:30:05: 3000000 INFO @ Fri, 16 Oct 2020 09:30:07: 10000000 INFO @ Fri, 16 Oct 2020 09:30:10: 4000000 INFO @ Fri, 16 Oct 2020 09:30:12: 11000000 INFO @ Fri, 16 Oct 2020 09:30:16: 5000000 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 @ Fri, 16 Oct 2020 09:30:17: 12000000 INFO @ Fri, 16 Oct 2020 09:30:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.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 @ Fri, 16 Oct 2020 09:30:18: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:30:18: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:30:22: 6000000 INFO @ Fri, 16 Oct 2020 09:30:23: 13000000 INFO @ Fri, 16 Oct 2020 09:30:24: 1000000 INFO @ Fri, 16 Oct 2020 09:30:27: 7000000 INFO @ Fri, 16 Oct 2020 09:30:28: 14000000 INFO @ Fri, 16 Oct 2020 09:30:30: 2000000 INFO @ Fri, 16 Oct 2020 09:30:33: 8000000 INFO @ Fri, 16 Oct 2020 09:30:33: 15000000 INFO @ Fri, 16 Oct 2020 09:30:36: 3000000 INFO @ Fri, 16 Oct 2020 09:30:38: 9000000 INFO @ Fri, 16 Oct 2020 09:30:39: 16000000 INFO @ Fri, 16 Oct 2020 09:30:42: 4000000 INFO @ Fri, 16 Oct 2020 09:30:44: 17000000 INFO @ Fri, 16 Oct 2020 09:30:44: 10000000 INFO @ Fri, 16 Oct 2020 09:30:47: 5000000 INFO @ Fri, 16 Oct 2020 09:30:49: 18000000 INFO @ Fri, 16 Oct 2020 09:30:50: 11000000 INFO @ Fri, 16 Oct 2020 09:30:54: 6000000 INFO @ Fri, 16 Oct 2020 09:30:55: 19000000 INFO @ Fri, 16 Oct 2020 09:30:55: 12000000 INFO @ Fri, 16 Oct 2020 09:31:00: 7000000 INFO @ Fri, 16 Oct 2020 09:31:00: 20000000 INFO @ Fri, 16 Oct 2020 09:31:01: 13000000 INFO @ Fri, 16 Oct 2020 09:31:06: 21000000 INFO @ Fri, 16 Oct 2020 09:31:06: 8000000 INFO @ Fri, 16 Oct 2020 09:31:07: 14000000 INFO @ Fri, 16 Oct 2020 09:31:11: 22000000 INFO @ Fri, 16 Oct 2020 09:31:12: 9000000 INFO @ Fri, 16 Oct 2020 09:31:12: 15000000 INFO @ Fri, 16 Oct 2020 09:31:17: 23000000 INFO @ Fri, 16 Oct 2020 09:31:18: 16000000 INFO @ Fri, 16 Oct 2020 09:31:18: 10000000 INFO @ Fri, 16 Oct 2020 09:31:22: 24000000 INFO @ Fri, 16 Oct 2020 09:31:24: 17000000 INFO @ Fri, 16 Oct 2020 09:31:24: 11000000 INFO @ Fri, 16 Oct 2020 09:31:27: 25000000 INFO @ Fri, 16 Oct 2020 09:31:29: 18000000 INFO @ Fri, 16 Oct 2020 09:31:30: 12000000 INFO @ Fri, 16 Oct 2020 09:31:32: 26000000 INFO @ Fri, 16 Oct 2020 09:31:36: 19000000 INFO @ Fri, 16 Oct 2020 09:31:37: 13000000 INFO @ Fri, 16 Oct 2020 09:31:38: 27000000 INFO @ Fri, 16 Oct 2020 09:31:42: 20000000 INFO @ Fri, 16 Oct 2020 09:31:43: 14000000 INFO @ Fri, 16 Oct 2020 09:31:43: 28000000 INFO @ Fri, 16 Oct 2020 09:31:48: 21000000 INFO @ Fri, 16 Oct 2020 09:31:48: 29000000 INFO @ Fri, 16 Oct 2020 09:31:49: 15000000 INFO @ Fri, 16 Oct 2020 09:31:54: 30000000 INFO @ Fri, 16 Oct 2020 09:31:54: 22000000 INFO @ Fri, 16 Oct 2020 09:31:55: 16000000 INFO @ Fri, 16 Oct 2020 09:31:59: 31000000 INFO @ Fri, 16 Oct 2020 09:32:00: 23000000 INFO @ Fri, 16 Oct 2020 09:32:01: 17000000 INFO @ Fri, 16 Oct 2020 09:32:04: 32000000 INFO @ Fri, 16 Oct 2020 09:32:06: 24000000 INFO @ Fri, 16 Oct 2020 09:32:07: 18000000 INFO @ Fri, 16 Oct 2020 09:32:10: 33000000 INFO @ Fri, 16 Oct 2020 09:32:12: 25000000 INFO @ Fri, 16 Oct 2020 09:32:13: 19000000 INFO @ Fri, 16 Oct 2020 09:32:15: 34000000 INFO @ Fri, 16 Oct 2020 09:32:18: 26000000 INFO @ Fri, 16 Oct 2020 09:32:19: 20000000 INFO @ Fri, 16 Oct 2020 09:32:20: 35000000 INFO @ Fri, 16 Oct 2020 09:32:24: 27000000 INFO @ Fri, 16 Oct 2020 09:32:26: 21000000 INFO @ Fri, 16 Oct 2020 09:32:26: 36000000 INFO @ Fri, 16 Oct 2020 09:32:30: 28000000 INFO @ Fri, 16 Oct 2020 09:32:31: 37000000 INFO @ Fri, 16 Oct 2020 09:32:32: 22000000 INFO @ Fri, 16 Oct 2020 09:32:36: 29000000 INFO @ Fri, 16 Oct 2020 09:32:36: 38000000 INFO @ Fri, 16 Oct 2020 09:32:38: 23000000 INFO @ Fri, 16 Oct 2020 09:32:42: 39000000 INFO @ Fri, 16 Oct 2020 09:32:42: 30000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:32:44: 24000000 INFO @ Fri, 16 Oct 2020 09:32:47: 40000000 INFO @ Fri, 16 Oct 2020 09:32:48: 31000000 INFO @ Fri, 16 Oct 2020 09:32:50: 25000000 INFO @ Fri, 16 Oct 2020 09:32:52: 41000000 INFO @ Fri, 16 Oct 2020 09:32:55: 32000000 INFO @ Fri, 16 Oct 2020 09:32:56: 26000000 INFO @ Fri, 16 Oct 2020 09:32:58: 42000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:33:01: 33000000 INFO @ Fri, 16 Oct 2020 09:33:02: 27000000 INFO @ Fri, 16 Oct 2020 09:33:03: 43000000 INFO @ Fri, 16 Oct 2020 09:33:07: 34000000 INFO @ Fri, 16 Oct 2020 09:33:08: 44000000 INFO @ Fri, 16 Oct 2020 09:33:08: 28000000 INFO @ Fri, 16 Oct 2020 09:33:13: 35000000 INFO @ Fri, 16 Oct 2020 09:33:14: 45000000 INFO @ Fri, 16 Oct 2020 09:33:15: 29000000 INFO @ Fri, 16 Oct 2020 09:33:19: 36000000 INFO @ Fri, 16 Oct 2020 09:33:19: 46000000 INFO @ Fri, 16 Oct 2020 09:33:21: 30000000 INFO @ Fri, 16 Oct 2020 09:33:24: 47000000 INFO @ Fri, 16 Oct 2020 09:33:25: 37000000 INFO @ Fri, 16 Oct 2020 09:33:27: 31000000 INFO @ Fri, 16 Oct 2020 09:33:30: 48000000 INFO @ Fri, 16 Oct 2020 09:33:31: 38000000 INFO @ Fri, 16 Oct 2020 09:33:33: 32000000 INFO @ Fri, 16 Oct 2020 09:33:35: 49000000 INFO @ Fri, 16 Oct 2020 09:33:37: 39000000 INFO @ Fri, 16 Oct 2020 09:33:39: 33000000 INFO @ Fri, 16 Oct 2020 09:33:40: 50000000 INFO @ Fri, 16 Oct 2020 09:33:43: 40000000 INFO @ Fri, 16 Oct 2020 09:33:45: 34000000 INFO @ Fri, 16 Oct 2020 09:33:46: 51000000 INFO @ Fri, 16 Oct 2020 09:33:49: 41000000 INFO @ Fri, 16 Oct 2020 09:33:51: 52000000 INFO @ Fri, 16 Oct 2020 09:33:51: 35000000 INFO @ Fri, 16 Oct 2020 09:33:55: 42000000 INFO @ Fri, 16 Oct 2020 09:33:56: 53000000 INFO @ Fri, 16 Oct 2020 09:33:58: 36000000 INFO @ Fri, 16 Oct 2020 09:34:00: 43000000 INFO @ Fri, 16 Oct 2020 09:34:02: 54000000 INFO @ Fri, 16 Oct 2020 09:34:04: 37000000 INFO @ Fri, 16 Oct 2020 09:34:06: 44000000 INFO @ Fri, 16 Oct 2020 09:34:07: 55000000 INFO @ Fri, 16 Oct 2020 09:34:10: 38000000 INFO @ Fri, 16 Oct 2020 09:34:12: 45000000 INFO @ Fri, 16 Oct 2020 09:34:12: 56000000 INFO @ Fri, 16 Oct 2020 09:34:15: #1 tag size is determined as 36 bps INFO @ Fri, 16 Oct 2020 09:34:15: #1 tag size = 36 INFO @ Fri, 16 Oct 2020 09:34:15: #1 total tags in treatment: 26947829 INFO @ Fri, 16 Oct 2020 09:34:15: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:34:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:34:16: #1 tags after filtering in treatment: 14620616 INFO @ Fri, 16 Oct 2020 09:34:16: #1 Redundant rate of treatment: 0.46 INFO @ Fri, 16 Oct 2020 09:34:16: #1 finished! INFO @ Fri, 16 Oct 2020 09:34:16: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:34:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:34:16: 39000000 INFO @ Fri, 16 Oct 2020 09:34:16: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:34:16: 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 @ Fri, 16 Oct 2020 09:34:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.05_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/SRX7973302/SRX7973302.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:34:17: 46000000 INFO @ Fri, 16 Oct 2020 09:34:22: 40000000 INFO @ Fri, 16 Oct 2020 09:34:22: 47000000 INFO @ Fri, 16 Oct 2020 09:34:28: 48000000 INFO @ Fri, 16 Oct 2020 09:34:29: 41000000 INFO @ Fri, 16 Oct 2020 09:34:33: 49000000 INFO @ Fri, 16 Oct 2020 09:34:35: 42000000 INFO @ Fri, 16 Oct 2020 09:34:38: 50000000 INFO @ Fri, 16 Oct 2020 09:34:41: 43000000 INFO @ Fri, 16 Oct 2020 09:34:44: 51000000 INFO @ Fri, 16 Oct 2020 09:34:47: 44000000 INFO @ Fri, 16 Oct 2020 09:34:49: 52000000 INFO @ Fri, 16 Oct 2020 09:34:53: 45000000 INFO @ Fri, 16 Oct 2020 09:34:54: 53000000 INFO @ Fri, 16 Oct 2020 09:34:59: 46000000 INFO @ Fri, 16 Oct 2020 09:35:00: 54000000 INFO @ Fri, 16 Oct 2020 09:35:05: 55000000 INFO @ Fri, 16 Oct 2020 09:35:05: 47000000 INFO @ Fri, 16 Oct 2020 09:35:10: 56000000 INFO @ Fri, 16 Oct 2020 09:35:12: 48000000 INFO @ Fri, 16 Oct 2020 09:35:13: #1 tag size is determined as 36 bps INFO @ Fri, 16 Oct 2020 09:35:13: #1 tag size = 36 INFO @ Fri, 16 Oct 2020 09:35:13: #1 total tags in treatment: 26947829 INFO @ Fri, 16 Oct 2020 09:35:13: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:35:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:35:13: #1 tags after filtering in treatment: 14620616 INFO @ Fri, 16 Oct 2020 09:35:13: #1 Redundant rate of treatment: 0.46 INFO @ Fri, 16 Oct 2020 09:35:13: #1 finished! INFO @ Fri, 16 Oct 2020 09:35:13: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:35:13: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:35:14: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:35:14: 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 @ Fri, 16 Oct 2020 09:35:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.10_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/SRX7973302/SRX7973302.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:35:17: 49000000 INFO @ Fri, 16 Oct 2020 09:35:23: 50000000 INFO @ Fri, 16 Oct 2020 09:35:29: 51000000 INFO @ Fri, 16 Oct 2020 09:35:35: 52000000 INFO @ Fri, 16 Oct 2020 09:35:40: 53000000 INFO @ Fri, 16 Oct 2020 09:35:46: 54000000 INFO @ Fri, 16 Oct 2020 09:35:51: 55000000 INFO @ Fri, 16 Oct 2020 09:35:57: 56000000 INFO @ Fri, 16 Oct 2020 09:36:00: #1 tag size is determined as 36 bps INFO @ Fri, 16 Oct 2020 09:36:00: #1 tag size = 36 INFO @ Fri, 16 Oct 2020 09:36:00: #1 total tags in treatment: 26947829 INFO @ Fri, 16 Oct 2020 09:36:00: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:36:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:36:00: #1 tags after filtering in treatment: 14620616 INFO @ Fri, 16 Oct 2020 09:36:00: #1 Redundant rate of treatment: 0.46 INFO @ Fri, 16 Oct 2020 09:36:00: #1 finished! INFO @ Fri, 16 Oct 2020 09:36:00: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:36:00: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:36:01: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:36:01: 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 @ Fri, 16 Oct 2020 09:36:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.20_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/SRX7973302/SRX7973302.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973302/SRX7973302.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling