Job ID = 7112801 SRX = SRX8357693 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:24:03 prefetch.2.10.7: 1) Downloading 'SRR11806281'... 2020-07-22T05:24:03 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:26:38 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:26:38 prefetch.2.10.7: 1) 'SRR11806281' was downloaded successfully 2020-07-22T05:26:38 prefetch.2.10.7: 'SRR11806281' has 0 unresolved dependencies Read 36138123 spots for SRR11806281/SRR11806281.sra Written 36138123 spots for SRR11806281/SRR11806281.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: 00:17:38 36138123 reads; of these: 36138123 (100.00%) were paired; of these: 5007421 (13.86%) aligned concordantly 0 times 27589668 (76.35%) aligned concordantly exactly 1 time 3541034 (9.80%) aligned concordantly >1 times ---- 5007421 pairs aligned concordantly 0 times; of these: 495847 (9.90%) aligned discordantly 1 time ---- 4511574 pairs aligned 0 times concordantly or discordantly; of these: 9023148 mates make up the pairs; of these: 7941083 (88.01%) aligned 0 times 293349 (3.25%) aligned exactly 1 time 788716 (8.74%) aligned >1 times 89.01% overall alignment rate Time searching: 00:17:38 Overall time: 00:17:38 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 28 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] 11414634 / 31505008 = 0.3623 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 14:57:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.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 14:57:20: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:57:20: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:57:26: 1000000 INFO @ Wed, 22 Jul 2020 14:57:31: 2000000 INFO @ Wed, 22 Jul 2020 14:57:36: 3000000 INFO @ Wed, 22 Jul 2020 14:57:42: 4000000 INFO @ Wed, 22 Jul 2020 14:57:47: 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 14:57:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.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 14:57:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:57:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:57:53: 6000000 INFO @ Wed, 22 Jul 2020 14:57:56: 1000000 INFO @ Wed, 22 Jul 2020 14:57:59: 7000000 INFO @ Wed, 22 Jul 2020 14:58:02: 2000000 INFO @ Wed, 22 Jul 2020 14:58:05: 8000000 INFO @ Wed, 22 Jul 2020 14:58:09: 3000000 INFO @ Wed, 22 Jul 2020 14:58:11: 9000000 INFO @ Wed, 22 Jul 2020 14:58:15: 4000000 INFO @ Wed, 22 Jul 2020 14:58:17: 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 14:58:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.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 14:58:20: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:58:20: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:58:21: 5000000 INFO @ Wed, 22 Jul 2020 14:58:24: 11000000 INFO @ Wed, 22 Jul 2020 14:58:26: 1000000 INFO @ Wed, 22 Jul 2020 14:58:27: 6000000 INFO @ Wed, 22 Jul 2020 14:58:29: 12000000 INFO @ Wed, 22 Jul 2020 14:58:32: 2000000 INFO @ Wed, 22 Jul 2020 14:58:34: 7000000 INFO @ Wed, 22 Jul 2020 14:58:35: 13000000 INFO @ Wed, 22 Jul 2020 14:58:38: 3000000 INFO @ Wed, 22 Jul 2020 14:58:40: 8000000 INFO @ Wed, 22 Jul 2020 14:58:40: 14000000 INFO @ Wed, 22 Jul 2020 14:58:43: 4000000 INFO @ Wed, 22 Jul 2020 14:58:46: 15000000 INFO @ Wed, 22 Jul 2020 14:58:47: 9000000 INFO @ Wed, 22 Jul 2020 14:58:49: 5000000 INFO @ Wed, 22 Jul 2020 14:58:52: 16000000 INFO @ Wed, 22 Jul 2020 14:58:53: 10000000 INFO @ Wed, 22 Jul 2020 14:58:55: 6000000 INFO @ Wed, 22 Jul 2020 14:58:57: 17000000 INFO @ Wed, 22 Jul 2020 14:59:00: 11000000 INFO @ Wed, 22 Jul 2020 14:59:01: 7000000 INFO @ Wed, 22 Jul 2020 14:59:03: 18000000 INFO @ Wed, 22 Jul 2020 14:59:05: 12000000 INFO @ Wed, 22 Jul 2020 14:59:07: 8000000 INFO @ Wed, 22 Jul 2020 14:59:09: 19000000 INFO @ Wed, 22 Jul 2020 14:59:11: 13000000 INFO @ Wed, 22 Jul 2020 14:59:13: 9000000 INFO @ Wed, 22 Jul 2020 14:59:15: 20000000 INFO @ Wed, 22 Jul 2020 14:59:17: 14000000 INFO @ Wed, 22 Jul 2020 14:59:18: 10000000 INFO @ Wed, 22 Jul 2020 14:59:22: 21000000 INFO @ Wed, 22 Jul 2020 14:59:22: 15000000 INFO @ Wed, 22 Jul 2020 14:59:24: 11000000 INFO @ Wed, 22 Jul 2020 14:59:28: 16000000 INFO @ Wed, 22 Jul 2020 14:59:29: 22000000 INFO @ Wed, 22 Jul 2020 14:59:31: 12000000 INFO @ Wed, 22 Jul 2020 14:59:34: 17000000 INFO @ Wed, 22 Jul 2020 14:59:35: 23000000 INFO @ Wed, 22 Jul 2020 14:59:37: 13000000 INFO @ Wed, 22 Jul 2020 14:59:40: 18000000 INFO @ Wed, 22 Jul 2020 14:59:42: 24000000 INFO @ Wed, 22 Jul 2020 14:59:44: 14000000 INFO @ Wed, 22 Jul 2020 14:59:46: 19000000 INFO @ Wed, 22 Jul 2020 14:59:47: 25000000 INFO @ Wed, 22 Jul 2020 14:59:51: 15000000 INFO @ Wed, 22 Jul 2020 14:59:52: 20000000 INFO @ Wed, 22 Jul 2020 14:59:53: 26000000 INFO @ Wed, 22 Jul 2020 14:59:58: 16000000 INFO @ Wed, 22 Jul 2020 14:59:59: 21000000 INFO @ Wed, 22 Jul 2020 14:59:59: 27000000 INFO @ Wed, 22 Jul 2020 15:00:05: 28000000 INFO @ Wed, 22 Jul 2020 15:00:05: 17000000 INFO @ Wed, 22 Jul 2020 15:00:06: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:00:10: 29000000 INFO @ Wed, 22 Jul 2020 15:00:11: 18000000 INFO @ Wed, 22 Jul 2020 15:00:12: 23000000 INFO @ Wed, 22 Jul 2020 15:00:16: 30000000 INFO @ Wed, 22 Jul 2020 15:00:18: 19000000 INFO @ Wed, 22 Jul 2020 15:00:19: 24000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:00:22: 31000000 INFO @ Wed, 22 Jul 2020 15:00:24: 20000000 INFO @ Wed, 22 Jul 2020 15:00:25: 25000000 INFO @ Wed, 22 Jul 2020 15:00:28: 32000000 INFO @ Wed, 22 Jul 2020 15:00:30: 21000000 INFO @ Wed, 22 Jul 2020 15:00:30: 26000000 INFO @ Wed, 22 Jul 2020 15:00:34: 33000000 INFO @ Wed, 22 Jul 2020 15:00:35: 22000000 INFO @ Wed, 22 Jul 2020 15:00:36: 27000000 INFO @ Wed, 22 Jul 2020 15:00:40: 34000000 INFO @ Wed, 22 Jul 2020 15:00:41: 23000000 INFO @ Wed, 22 Jul 2020 15:00:42: 28000000 INFO @ Wed, 22 Jul 2020 15:00:45: 35000000 INFO @ Wed, 22 Jul 2020 15:00:47: 24000000 INFO @ Wed, 22 Jul 2020 15:00:48: 29000000 INFO @ Wed, 22 Jul 2020 15:00:51: 36000000 INFO @ Wed, 22 Jul 2020 15:00:53: 25000000 INFO @ Wed, 22 Jul 2020 15:00:54: 30000000 INFO @ Wed, 22 Jul 2020 15:00:57: 37000000 INFO @ Wed, 22 Jul 2020 15:00:59: 26000000 INFO @ Wed, 22 Jul 2020 15:01:00: 31000000 INFO @ Wed, 22 Jul 2020 15:01:03: 38000000 INFO @ Wed, 22 Jul 2020 15:01:06: 27000000 INFO @ Wed, 22 Jul 2020 15:01:06: 32000000 INFO @ Wed, 22 Jul 2020 15:01:09: 39000000 INFO @ Wed, 22 Jul 2020 15:01:12: 33000000 INFO @ Wed, 22 Jul 2020 15:01:12: 28000000 INFO @ Wed, 22 Jul 2020 15:01:15: 40000000 INFO @ Wed, 22 Jul 2020 15:01:17: 34000000 INFO @ Wed, 22 Jul 2020 15:01:18: 29000000 INFO @ Wed, 22 Jul 2020 15:01:21: 41000000 INFO @ Wed, 22 Jul 2020 15:01:23: 35000000 INFO @ Wed, 22 Jul 2020 15:01:24: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:01:24: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:01:24: #1 total tags in treatment: 19946327 INFO @ Wed, 22 Jul 2020 15:01:24: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:01:24: #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 15:01:24: #1 tags after filtering in treatment: 7475073 INFO @ Wed, 22 Jul 2020 15:01:24: #1 Redundant rate of treatment: 0.63 INFO @ Wed, 22 Jul 2020 15:01:24: #1 finished! INFO @ Wed, 22 Jul 2020 15:01:24: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:01:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:01:25: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:01:25: 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 15:01:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.05_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/SRX8357693/SRX8357693.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:01:25: 30000000 INFO @ Wed, 22 Jul 2020 15:01:29: 36000000 INFO @ Wed, 22 Jul 2020 15:01:31: 31000000 INFO @ Wed, 22 Jul 2020 15:01:35: 37000000 INFO @ Wed, 22 Jul 2020 15:01:38: 32000000 INFO @ Wed, 22 Jul 2020 15:01:40: 38000000 INFO @ Wed, 22 Jul 2020 15:01:44: 33000000 INFO @ Wed, 22 Jul 2020 15:01:46: 39000000 INFO @ Wed, 22 Jul 2020 15:01:51: 34000000 INFO @ Wed, 22 Jul 2020 15:01:51: 40000000 INFO @ Wed, 22 Jul 2020 15:01:57: 35000000 INFO @ Wed, 22 Jul 2020 15:01:57: 41000000 INFO @ Wed, 22 Jul 2020 15:02:00: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:02:00: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:02:00: #1 total tags in treatment: 19946327 INFO @ Wed, 22 Jul 2020 15:02:00: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:02:00: #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 15:02:00: #1 tags after filtering in treatment: 7475073 INFO @ Wed, 22 Jul 2020 15:02:00: #1 Redundant rate of treatment: 0.63 INFO @ Wed, 22 Jul 2020 15:02:00: #1 finished! INFO @ Wed, 22 Jul 2020 15:02:00: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:02:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:02:01: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:02:01: 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 @ Wed, 22 Jul 2020 15:02:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.10_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/SRX8357693/SRX8357693.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:02:03: 36000000 INFO @ Wed, 22 Jul 2020 15:02:09: 37000000 INFO @ Wed, 22 Jul 2020 15:02:15: 38000000 INFO @ Wed, 22 Jul 2020 15:02:21: 39000000 INFO @ Wed, 22 Jul 2020 15:02:27: 40000000 INFO @ Wed, 22 Jul 2020 15:02:33: 41000000 INFO @ Wed, 22 Jul 2020 15:02:36: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:02:36: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:02:36: #1 total tags in treatment: 19946327 INFO @ Wed, 22 Jul 2020 15:02:36: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:02:36: #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 15:02:36: #1 tags after filtering in treatment: 7475073 INFO @ Wed, 22 Jul 2020 15:02:36: #1 Redundant rate of treatment: 0.63 INFO @ Wed, 22 Jul 2020 15:02:36: #1 finished! INFO @ Wed, 22 Jul 2020 15:02:36: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:02:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:02:37: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:02:37: 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 15:02:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.20_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/SRX8357693/SRX8357693.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357693/SRX8357693.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling