Job ID = 5791639 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 22,499,812 reads read : 44,999,624 reads written : 44,999,624 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:11:14 22499812 reads; of these: 22499812 (100.00%) were paired; of these: 625456 (2.78%) aligned concordantly 0 times 19956484 (88.70%) aligned concordantly exactly 1 time 1917872 (8.52%) aligned concordantly >1 times ---- 625456 pairs aligned concordantly 0 times; of these: 24880 (3.98%) aligned discordantly 1 time ---- 600576 pairs aligned 0 times concordantly or discordantly; of these: 1201152 mates make up the pairs; of these: 1029238 (85.69%) aligned 0 times 144900 (12.06%) aligned exactly 1 time 27014 (2.25%) aligned >1 times 97.71% overall alignment rate Time searching: 00:11:14 Overall time: 00:11:14 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] 2593881 / 21882316 = 0.1185 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 Apr 2020 10:22:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.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 Apr 2020 10:22:06: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:22:06: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:22:13: 1000000 INFO @ Wed, 22 Apr 2020 10:22:19: 2000000 INFO @ Wed, 22 Apr 2020 10:22:26: 3000000 INFO @ Wed, 22 Apr 2020 10:22:32: 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 Apr 2020 10:22:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.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 Apr 2020 10:22:37: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:22:37: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:22:39: 5000000 INFO @ Wed, 22 Apr 2020 10:22:43: 1000000 INFO @ Wed, 22 Apr 2020 10:22:46: 6000000 INFO @ Wed, 22 Apr 2020 10:22:50: 2000000 INFO @ Wed, 22 Apr 2020 10:22:52: 7000000 INFO @ Wed, 22 Apr 2020 10:22:57: 3000000 INFO @ Wed, 22 Apr 2020 10:22:59: 8000000 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 Apr 2020 10:23:04: 4000000 INFO @ Wed, 22 Apr 2020 10:23:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.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 Apr 2020 10:23:06: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:23:06: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:23:06: 9000000 INFO @ Wed, 22 Apr 2020 10:23:11: 5000000 INFO @ Wed, 22 Apr 2020 10:23:13: 1000000 INFO @ Wed, 22 Apr 2020 10:23:13: 10000000 INFO @ Wed, 22 Apr 2020 10:23:18: 6000000 INFO @ Wed, 22 Apr 2020 10:23:20: 2000000 INFO @ Wed, 22 Apr 2020 10:23:20: 11000000 INFO @ Wed, 22 Apr 2020 10:23:25: 7000000 INFO @ Wed, 22 Apr 2020 10:23:27: 3000000 INFO @ Wed, 22 Apr 2020 10:23:27: 12000000 INFO @ Wed, 22 Apr 2020 10:23:32: 8000000 INFO @ Wed, 22 Apr 2020 10:23:34: 4000000 INFO @ Wed, 22 Apr 2020 10:23:34: 13000000 INFO @ Wed, 22 Apr 2020 10:23:39: 9000000 INFO @ Wed, 22 Apr 2020 10:23:41: 5000000 INFO @ Wed, 22 Apr 2020 10:23:41: 14000000 INFO @ Wed, 22 Apr 2020 10:23:46: 10000000 INFO @ Wed, 22 Apr 2020 10:23:48: 6000000 INFO @ Wed, 22 Apr 2020 10:23:48: 15000000 INFO @ Wed, 22 Apr 2020 10:23:53: 11000000 INFO @ Wed, 22 Apr 2020 10:23:55: 7000000 INFO @ Wed, 22 Apr 2020 10:23:55: 16000000 INFO @ Wed, 22 Apr 2020 10:24:00: 12000000 INFO @ Wed, 22 Apr 2020 10:24:02: 8000000 INFO @ Wed, 22 Apr 2020 10:24:02: 17000000 INFO @ Wed, 22 Apr 2020 10:24:06: 13000000 INFO @ Wed, 22 Apr 2020 10:24:09: 9000000 INFO @ Wed, 22 Apr 2020 10:24:09: 18000000 INFO @ Wed, 22 Apr 2020 10:24:13: 14000000 INFO @ Wed, 22 Apr 2020 10:24:16: 10000000 INFO @ Wed, 22 Apr 2020 10:24:16: 19000000 INFO @ Wed, 22 Apr 2020 10:24:20: 15000000 INFO @ Wed, 22 Apr 2020 10:24:23: 11000000 INFO @ Wed, 22 Apr 2020 10:24:23: 20000000 INFO @ Wed, 22 Apr 2020 10:24:27: 16000000 INFO @ Wed, 22 Apr 2020 10:24:30: 12000000 INFO @ Wed, 22 Apr 2020 10:24:30: 21000000 INFO @ Wed, 22 Apr 2020 10:24:34: 17000000 INFO @ Wed, 22 Apr 2020 10:24:37: 13000000 INFO @ Wed, 22 Apr 2020 10:24:37: 22000000 INFO @ Wed, 22 Apr 2020 10:24:41: 18000000 INFO @ Wed, 22 Apr 2020 10:24:44: 14000000 INFO @ Wed, 22 Apr 2020 10:24:44: 23000000 INFO @ Wed, 22 Apr 2020 10:24:48: 19000000 INFO @ Wed, 22 Apr 2020 10:24:51: 15000000 INFO @ Wed, 22 Apr 2020 10:24:51: 24000000 INFO @ Wed, 22 Apr 2020 10:24:55: 20000000 INFO @ Wed, 22 Apr 2020 10:24:58: 16000000 INFO @ Wed, 22 Apr 2020 10:24:58: 25000000 INFO @ Wed, 22 Apr 2020 10:25:02: 21000000 INFO @ Wed, 22 Apr 2020 10:25:05: 26000000 INFO @ Wed, 22 Apr 2020 10:25:05: 17000000 INFO @ Wed, 22 Apr 2020 10:25:09: 22000000 INFO @ Wed, 22 Apr 2020 10:25:12: 27000000 INFO @ Wed, 22 Apr 2020 10:25:12: 18000000 INFO @ Wed, 22 Apr 2020 10:25:16: 23000000 INFO @ Wed, 22 Apr 2020 10:25:19: 28000000 INFO @ Wed, 22 Apr 2020 10:25:19: 19000000 INFO @ Wed, 22 Apr 2020 10:25:23: 24000000 INFO @ Wed, 22 Apr 2020 10:25:26: 29000000 INFO @ Wed, 22 Apr 2020 10:25:26: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:25:30: 25000000 INFO @ Wed, 22 Apr 2020 10:25:33: 30000000 INFO @ Wed, 22 Apr 2020 10:25:33: 21000000 INFO @ Wed, 22 Apr 2020 10:25:37: 26000000 INFO @ Wed, 22 Apr 2020 10:25:40: 31000000 INFO @ Wed, 22 Apr 2020 10:25:40: 22000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:25:43: 27000000 INFO @ Wed, 22 Apr 2020 10:25:47: 32000000 INFO @ Wed, 22 Apr 2020 10:25:47: 23000000 INFO @ Wed, 22 Apr 2020 10:25:50: 28000000 INFO @ Wed, 22 Apr 2020 10:25:54: 33000000 INFO @ Wed, 22 Apr 2020 10:25:54: 24000000 INFO @ Wed, 22 Apr 2020 10:25:57: 29000000 INFO @ Wed, 22 Apr 2020 10:26:01: 34000000 INFO @ Wed, 22 Apr 2020 10:26:02: 25000000 INFO @ Wed, 22 Apr 2020 10:26:04: 30000000 INFO @ Wed, 22 Apr 2020 10:26:08: 35000000 INFO @ Wed, 22 Apr 2020 10:26:09: 26000000 INFO @ Wed, 22 Apr 2020 10:26:11: 31000000 INFO @ Wed, 22 Apr 2020 10:26:14: 36000000 INFO @ Wed, 22 Apr 2020 10:26:15: 27000000 INFO @ Wed, 22 Apr 2020 10:26:18: 32000000 INFO @ Wed, 22 Apr 2020 10:26:21: 37000000 INFO @ Wed, 22 Apr 2020 10:26:22: 28000000 INFO @ Wed, 22 Apr 2020 10:26:24: 33000000 INFO @ Wed, 22 Apr 2020 10:26:28: 38000000 INFO @ Wed, 22 Apr 2020 10:26:29: 29000000 INFO @ Wed, 22 Apr 2020 10:26:31: 34000000 INFO @ Wed, 22 Apr 2020 10:26:33: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:26:33: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:26:33: #1 total tags in treatment: 19281537 INFO @ Wed, 22 Apr 2020 10:26:33: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:26:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 10:26:34: #1 tags after filtering in treatment: 10802377 INFO @ Wed, 22 Apr 2020 10:26:34: #1 Redundant rate of treatment: 0.44 INFO @ Wed, 22 Apr 2020 10:26:34: #1 finished! INFO @ Wed, 22 Apr 2020 10:26:34: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:26:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:26:34: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:26:34: 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 Apr 2020 10:26:34: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 10:26:36: 30000000 INFO @ Wed, 22 Apr 2020 10:26:38: 35000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:26:43: 31000000 INFO @ Wed, 22 Apr 2020 10:26:45: 36000000 INFO @ Wed, 22 Apr 2020 10:26:50: 32000000 INFO @ Wed, 22 Apr 2020 10:26:51: 37000000 INFO @ Wed, 22 Apr 2020 10:26:57: 33000000 INFO @ Wed, 22 Apr 2020 10:26:58: 38000000 INFO @ Wed, 22 Apr 2020 10:27:03: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:27:03: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:27:03: #1 total tags in treatment: 19281537 INFO @ Wed, 22 Apr 2020 10:27:03: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:27:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 10:27:03: #1 tags after filtering in treatment: 10802377 INFO @ Wed, 22 Apr 2020 10:27:03: #1 Redundant rate of treatment: 0.44 INFO @ Wed, 22 Apr 2020 10:27:03: #1 finished! INFO @ Wed, 22 Apr 2020 10:27:03: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:27:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:27:03: 34000000 INFO @ Wed, 22 Apr 2020 10:27:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:27:04: 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 Apr 2020 10:27:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.10_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/SRX7409605/SRX7409605.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:27:10: 35000000 INFO @ Wed, 22 Apr 2020 10:27:16: 36000000 INFO @ Wed, 22 Apr 2020 10:27:22: 37000000 INFO @ Wed, 22 Apr 2020 10:27:28: 38000000 INFO @ Wed, 22 Apr 2020 10:27:33: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:27:33: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:27:33: #1 total tags in treatment: 19281537 INFO @ Wed, 22 Apr 2020 10:27:33: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:27:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 10:27:33: #1 tags after filtering in treatment: 10802377 INFO @ Wed, 22 Apr 2020 10:27:33: #1 Redundant rate of treatment: 0.44 INFO @ Wed, 22 Apr 2020 10:27:33: #1 finished! INFO @ Wed, 22 Apr 2020 10:27:33: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:27:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:27:34: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:27:34: 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 Apr 2020 10:27:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.20_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/SRX7409605/SRX7409605.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409605/SRX7409605.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling