Job ID = 5791118 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 26,240,809 reads read : 52,481,618 reads written : 52,481,618 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: 00:12:53 26240809 reads; of these: 26240809 (100.00%) were paired; of these: 2971956 (11.33%) aligned concordantly 0 times 19957338 (76.05%) aligned concordantly exactly 1 time 3311515 (12.62%) aligned concordantly >1 times ---- 2971956 pairs aligned concordantly 0 times; of these: 691789 (23.28%) aligned discordantly 1 time ---- 2280167 pairs aligned 0 times concordantly or discordantly; of these: 4560334 mates make up the pairs; of these: 3525579 (77.31%) aligned 0 times 538509 (11.81%) aligned exactly 1 time 496246 (10.88%) aligned >1 times 93.28% overall alignment rate Time searching: 00:12:53 Overall time: 00:12:53 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] 3676524 / 23930211 = 0.1536 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 09:15:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.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 09:15:39: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:15:39: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:15:44: 1000000 INFO @ Wed, 22 Apr 2020 09:15:48: 2000000 INFO @ Wed, 22 Apr 2020 09:15:53: 3000000 INFO @ Wed, 22 Apr 2020 09:15:57: 4000000 INFO @ Wed, 22 Apr 2020 09:16:02: 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 Apr 2020 09:16:06: 6000000 INFO @ Wed, 22 Apr 2020 09:16:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.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 09:16:10: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:16:10: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:16:11: 7000000 INFO @ Wed, 22 Apr 2020 09:16:15: 1000000 INFO @ Wed, 22 Apr 2020 09:16:15: 8000000 INFO @ Wed, 22 Apr 2020 09:16:19: 2000000 INFO @ Wed, 22 Apr 2020 09:16:20: 9000000 INFO @ Wed, 22 Apr 2020 09:16:24: 3000000 INFO @ Wed, 22 Apr 2020 09:16:25: 10000000 INFO @ Wed, 22 Apr 2020 09:16:29: 4000000 INFO @ Wed, 22 Apr 2020 09:16:30: 11000000 INFO @ Wed, 22 Apr 2020 09:16:34: 5000000 INFO @ Wed, 22 Apr 2020 09:16:34: 12000000 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 09:16:38: 6000000 INFO @ Wed, 22 Apr 2020 09:16:39: 13000000 INFO @ Wed, 22 Apr 2020 09:16:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.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 09:16:39: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:16:39: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:16:43: 7000000 INFO @ Wed, 22 Apr 2020 09:16:44: 14000000 INFO @ Wed, 22 Apr 2020 09:16:45: 1000000 INFO @ Wed, 22 Apr 2020 09:16:48: 8000000 INFO @ Wed, 22 Apr 2020 09:16:49: 15000000 INFO @ Wed, 22 Apr 2020 09:16:50: 2000000 INFO @ Wed, 22 Apr 2020 09:16:53: 9000000 INFO @ Wed, 22 Apr 2020 09:16:54: 16000000 INFO @ Wed, 22 Apr 2020 09:16:56: 3000000 INFO @ Wed, 22 Apr 2020 09:16:58: 10000000 INFO @ Wed, 22 Apr 2020 09:16:59: 17000000 INFO @ Wed, 22 Apr 2020 09:17:02: 4000000 INFO @ Wed, 22 Apr 2020 09:17:03: 11000000 INFO @ Wed, 22 Apr 2020 09:17:04: 18000000 INFO @ Wed, 22 Apr 2020 09:17:08: 5000000 INFO @ Wed, 22 Apr 2020 09:17:08: 12000000 INFO @ Wed, 22 Apr 2020 09:17:09: 19000000 INFO @ Wed, 22 Apr 2020 09:17:13: 13000000 INFO @ Wed, 22 Apr 2020 09:17:13: 6000000 INFO @ Wed, 22 Apr 2020 09:17:14: 20000000 INFO @ Wed, 22 Apr 2020 09:17:18: 14000000 INFO @ Wed, 22 Apr 2020 09:17:19: 21000000 INFO @ Wed, 22 Apr 2020 09:17:19: 7000000 INFO @ Wed, 22 Apr 2020 09:17:23: 15000000 INFO @ Wed, 22 Apr 2020 09:17:24: 22000000 INFO @ Wed, 22 Apr 2020 09:17:25: 8000000 INFO @ Wed, 22 Apr 2020 09:17:28: 16000000 INFO @ Wed, 22 Apr 2020 09:17:28: 23000000 INFO @ Wed, 22 Apr 2020 09:17:30: 9000000 INFO @ Wed, 22 Apr 2020 09:17:33: 17000000 INFO @ Wed, 22 Apr 2020 09:17:33: 24000000 INFO @ Wed, 22 Apr 2020 09:17:36: 10000000 INFO @ Wed, 22 Apr 2020 09:17:38: 18000000 INFO @ Wed, 22 Apr 2020 09:17:38: 25000000 INFO @ Wed, 22 Apr 2020 09:17:41: 11000000 INFO @ Wed, 22 Apr 2020 09:17:43: 19000000 INFO @ Wed, 22 Apr 2020 09:17:43: 26000000 INFO @ Wed, 22 Apr 2020 09:17:47: 12000000 INFO @ Wed, 22 Apr 2020 09:17:48: 20000000 INFO @ Wed, 22 Apr 2020 09:17:48: 27000000 INFO @ Wed, 22 Apr 2020 09:17:52: 13000000 INFO @ Wed, 22 Apr 2020 09:17:53: 21000000 INFO @ Wed, 22 Apr 2020 09:17:53: 28000000 INFO @ Wed, 22 Apr 2020 09:17:57: 29000000 INFO @ Wed, 22 Apr 2020 09:17:57: 22000000 INFO @ Wed, 22 Apr 2020 09:17:57: 14000000 INFO @ Wed, 22 Apr 2020 09:18:02: 30000000 INFO @ Wed, 22 Apr 2020 09:18:02: 23000000 INFO @ Wed, 22 Apr 2020 09:18:03: 15000000 INFO @ Wed, 22 Apr 2020 09:18:07: 31000000 INFO @ Wed, 22 Apr 2020 09:18:07: 24000000 INFO @ Wed, 22 Apr 2020 09:18:08: 16000000 INFO @ Wed, 22 Apr 2020 09:18:12: 32000000 INFO @ Wed, 22 Apr 2020 09:18:12: 25000000 INFO @ Wed, 22 Apr 2020 09:18:14: 17000000 INFO @ Wed, 22 Apr 2020 09:18:17: 33000000 INFO @ Wed, 22 Apr 2020 09:18:18: 26000000 INFO @ Wed, 22 Apr 2020 09:18:19: 18000000 INFO @ Wed, 22 Apr 2020 09:18:22: 34000000 INFO @ Wed, 22 Apr 2020 09:18:23: 27000000 INFO @ Wed, 22 Apr 2020 09:18:25: 19000000 INFO @ Wed, 22 Apr 2020 09:18:27: 35000000 INFO @ Wed, 22 Apr 2020 09:18:28: 28000000 INFO @ Wed, 22 Apr 2020 09:18:30: 20000000 INFO @ Wed, 22 Apr 2020 09:18:32: 36000000 INFO @ Wed, 22 Apr 2020 09:18:32: 29000000 INFO @ Wed, 22 Apr 2020 09:18:36: 21000000 INFO @ Wed, 22 Apr 2020 09:18:37: 37000000 INFO @ Wed, 22 Apr 2020 09:18:37: 30000000 INFO @ Wed, 22 Apr 2020 09:18:41: 38000000 INFO @ Wed, 22 Apr 2020 09:18:42: 22000000 INFO @ Wed, 22 Apr 2020 09:18:42: 31000000 INFO @ Wed, 22 Apr 2020 09:18:46: 39000000 INFO @ Wed, 22 Apr 2020 09:18:47: 23000000 INFO @ Wed, 22 Apr 2020 09:18:47: 32000000 INFO @ Wed, 22 Apr 2020 09:18:51: 40000000 INFO @ Wed, 22 Apr 2020 09:18:52: 33000000 INFO @ Wed, 22 Apr 2020 09:18:53: 24000000 INFO @ Wed, 22 Apr 2020 09:18:56: 41000000 INFO @ Wed, 22 Apr 2020 09:18:57: 34000000 INFO @ Wed, 22 Apr 2020 09:18:59: 25000000 INFO @ Wed, 22 Apr 2020 09:18:59: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 09:18:59: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 09:18:59: #1 total tags in treatment: 19634553 INFO @ Wed, 22 Apr 2020 09:18:59: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:18:59: #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 09:19:00: #1 tags after filtering in treatment: 12045036 INFO @ Wed, 22 Apr 2020 09:19:00: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Apr 2020 09:19:00: #1 finished! INFO @ Wed, 22 Apr 2020 09:19:00: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:19:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:19:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:19:00: 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 09:19:00: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 09:19:02: 35000000 INFO @ Wed, 22 Apr 2020 09:19:04: 26000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.05_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/SRX6078429/SRX6078429.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:19:07: 36000000 INFO @ Wed, 22 Apr 2020 09:19:10: 27000000 INFO @ Wed, 22 Apr 2020 09:19:12: 37000000 INFO @ Wed, 22 Apr 2020 09:19:15: 28000000 INFO @ Wed, 22 Apr 2020 09:19:17: 38000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 09:19:21: 29000000 INFO @ Wed, 22 Apr 2020 09:19:22: 39000000 INFO @ Wed, 22 Apr 2020 09:19:26: 30000000 INFO @ Wed, 22 Apr 2020 09:19:27: 40000000 INFO @ Wed, 22 Apr 2020 09:19:31: 41000000 INFO @ Wed, 22 Apr 2020 09:19:32: 31000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 09:19:35: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 09:19:35: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 09:19:35: #1 total tags in treatment: 19634553 INFO @ Wed, 22 Apr 2020 09:19:35: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:19:35: #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 09:19:35: #1 tags after filtering in treatment: 12045036 INFO @ Wed, 22 Apr 2020 09:19:35: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Apr 2020 09:19:35: #1 finished! INFO @ Wed, 22 Apr 2020 09:19:35: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:19:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:19:36: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:19:36: 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 09:19:36: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 09:19:38: 32000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.10_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/SRX6078429/SRX6078429.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:19:43: 33000000 INFO @ Wed, 22 Apr 2020 09:19:48: 34000000 INFO @ Wed, 22 Apr 2020 09:19:54: 35000000 INFO @ Wed, 22 Apr 2020 09:19:59: 36000000 INFO @ Wed, 22 Apr 2020 09:20:05: 37000000 INFO @ Wed, 22 Apr 2020 09:20:10: 38000000 INFO @ Wed, 22 Apr 2020 09:20:15: 39000000 INFO @ Wed, 22 Apr 2020 09:20:21: 40000000 INFO @ Wed, 22 Apr 2020 09:20:26: 41000000 INFO @ Wed, 22 Apr 2020 09:20:30: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 09:20:30: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 09:20:30: #1 total tags in treatment: 19634553 INFO @ Wed, 22 Apr 2020 09:20:30: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:20:30: #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 09:20:30: #1 tags after filtering in treatment: 12045036 INFO @ Wed, 22 Apr 2020 09:20:30: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Apr 2020 09:20:30: #1 finished! INFO @ Wed, 22 Apr 2020 09:20:30: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:20:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:20:31: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:20:31: 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 09:20:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.20_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/SRX6078429/SRX6078429.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078429/SRX6078429.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling