Job ID = 7118270 SRX = SRX8639588 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:13:51 prefetch.2.10.7: 1) Downloading 'SRR12117026'... 2020-07-22T07:13:51 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:16:35 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:16:35 prefetch.2.10.7: 1) 'SRR12117026' was downloaded successfully 2020-07-22T07:16:35 prefetch.2.10.7: 'SRR12117026' has 0 unresolved dependencies Read 28569353 spots for SRR12117026/SRR12117026.sra Written 28569353 spots for SRR12117026/SRR12117026.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: 00:15:43 28569353 reads; of these: 28569353 (100.00%) were paired; of these: 4264725 (14.93%) aligned concordantly 0 times 21318865 (74.62%) aligned concordantly exactly 1 time 2985763 (10.45%) aligned concordantly >1 times ---- 4264725 pairs aligned concordantly 0 times; of these: 334617 (7.85%) aligned discordantly 1 time ---- 3930108 pairs aligned 0 times concordantly or discordantly; of these: 7860216 mates make up the pairs; of these: 7470224 (95.04%) aligned 0 times 263192 (3.35%) aligned exactly 1 time 126800 (1.61%) aligned >1 times 86.93% overall alignment rate Time searching: 00:15:43 Overall time: 00:15:43 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 24 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] 550689 / 24612642 = 0.0224 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 16:44:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.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 16:44:21: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:44:21: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:44:26: 1000000 INFO @ Wed, 22 Jul 2020 16:44:31: 2000000 INFO @ Wed, 22 Jul 2020 16:44:36: 3000000 INFO @ Wed, 22 Jul 2020 16:44:42: 4000000 INFO @ Wed, 22 Jul 2020 16:44:47: 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 16:44:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.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 16:44:51: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:44:51: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:44:52: 6000000 INFO @ Wed, 22 Jul 2020 16:44:56: 1000000 INFO @ Wed, 22 Jul 2020 16:44:57: 7000000 INFO @ Wed, 22 Jul 2020 16:45:01: 2000000 INFO @ Wed, 22 Jul 2020 16:45:02: 8000000 INFO @ Wed, 22 Jul 2020 16:45:06: 3000000 INFO @ Wed, 22 Jul 2020 16:45:07: 9000000 INFO @ Wed, 22 Jul 2020 16:45:11: 4000000 INFO @ Wed, 22 Jul 2020 16:45:13: 10000000 INFO @ Wed, 22 Jul 2020 16:45:15: 5000000 INFO @ Wed, 22 Jul 2020 16:45:18: 11000000 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 16:45:20: 6000000 INFO @ Wed, 22 Jul 2020 16:45:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.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 16:45:21: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:45:21: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:45:23: 12000000 INFO @ Wed, 22 Jul 2020 16:45:25: 7000000 INFO @ Wed, 22 Jul 2020 16:45:26: 1000000 INFO @ Wed, 22 Jul 2020 16:45:28: 13000000 INFO @ Wed, 22 Jul 2020 16:45:30: 8000000 INFO @ Wed, 22 Jul 2020 16:45:31: 2000000 INFO @ Wed, 22 Jul 2020 16:45:33: 14000000 INFO @ Wed, 22 Jul 2020 16:45:34: 9000000 INFO @ Wed, 22 Jul 2020 16:45:36: 3000000 INFO @ Wed, 22 Jul 2020 16:45:39: 15000000 INFO @ Wed, 22 Jul 2020 16:45:39: 10000000 INFO @ Wed, 22 Jul 2020 16:45:41: 4000000 INFO @ Wed, 22 Jul 2020 16:45:44: 11000000 INFO @ Wed, 22 Jul 2020 16:45:44: 16000000 INFO @ Wed, 22 Jul 2020 16:45:46: 5000000 INFO @ Wed, 22 Jul 2020 16:45:48: 12000000 INFO @ Wed, 22 Jul 2020 16:45:49: 17000000 INFO @ Wed, 22 Jul 2020 16:45:51: 6000000 INFO @ Wed, 22 Jul 2020 16:45:53: 13000000 INFO @ Wed, 22 Jul 2020 16:45:54: 18000000 INFO @ Wed, 22 Jul 2020 16:45:56: 7000000 INFO @ Wed, 22 Jul 2020 16:45:58: 14000000 INFO @ Wed, 22 Jul 2020 16:45:59: 19000000 INFO @ Wed, 22 Jul 2020 16:46:00: 8000000 INFO @ Wed, 22 Jul 2020 16:46:03: 15000000 INFO @ Wed, 22 Jul 2020 16:46:05: 20000000 INFO @ Wed, 22 Jul 2020 16:46:05: 9000000 INFO @ Wed, 22 Jul 2020 16:46:07: 16000000 INFO @ Wed, 22 Jul 2020 16:46:10: 21000000 INFO @ Wed, 22 Jul 2020 16:46:10: 10000000 INFO @ Wed, 22 Jul 2020 16:46:12: 17000000 INFO @ Wed, 22 Jul 2020 16:46:15: 11000000 INFO @ Wed, 22 Jul 2020 16:46:15: 22000000 INFO @ Wed, 22 Jul 2020 16:46:17: 18000000 INFO @ Wed, 22 Jul 2020 16:46:19: 12000000 INFO @ Wed, 22 Jul 2020 16:46:20: 23000000 INFO @ Wed, 22 Jul 2020 16:46:21: 19000000 INFO @ Wed, 22 Jul 2020 16:46:24: 13000000 INFO @ Wed, 22 Jul 2020 16:46:26: 24000000 INFO @ Wed, 22 Jul 2020 16:46:26: 20000000 INFO @ Wed, 22 Jul 2020 16:46:29: 14000000 INFO @ Wed, 22 Jul 2020 16:46:31: 25000000 INFO @ Wed, 22 Jul 2020 16:46:31: 21000000 INFO @ Wed, 22 Jul 2020 16:46:34: 15000000 INFO @ Wed, 22 Jul 2020 16:46:35: 22000000 INFO @ Wed, 22 Jul 2020 16:46:36: 26000000 INFO @ Wed, 22 Jul 2020 16:46:39: 16000000 INFO @ Wed, 22 Jul 2020 16:46:40: 23000000 INFO @ Wed, 22 Jul 2020 16:46:41: 27000000 INFO @ Wed, 22 Jul 2020 16:46:44: 17000000 INFO @ Wed, 22 Jul 2020 16:46:45: 24000000 INFO @ Wed, 22 Jul 2020 16:46:46: 28000000 INFO @ Wed, 22 Jul 2020 16:46:49: 18000000 INFO @ Wed, 22 Jul 2020 16:46:50: 25000000 INFO @ Wed, 22 Jul 2020 16:46:51: 29000000 INFO @ Wed, 22 Jul 2020 16:46:53: 19000000 INFO @ Wed, 22 Jul 2020 16:46:54: 26000000 INFO @ Wed, 22 Jul 2020 16:46:57: 30000000 INFO @ Wed, 22 Jul 2020 16:46:58: 20000000 INFO @ Wed, 22 Jul 2020 16:46:59: 27000000 INFO @ Wed, 22 Jul 2020 16:47:02: 31000000 INFO @ Wed, 22 Jul 2020 16:47:03: 21000000 INFO @ Wed, 22 Jul 2020 16:47:04: 28000000 INFO @ Wed, 22 Jul 2020 16:47:07: 32000000 INFO @ Wed, 22 Jul 2020 16:47:08: 22000000 INFO @ Wed, 22 Jul 2020 16:47:08: 29000000 INFO @ Wed, 22 Jul 2020 16:47:12: 33000000 INFO @ Wed, 22 Jul 2020 16:47:12: 23000000 INFO @ Wed, 22 Jul 2020 16:47:13: 30000000 INFO @ Wed, 22 Jul 2020 16:47:17: 24000000 INFO @ Wed, 22 Jul 2020 16:47:17: 34000000 INFO @ Wed, 22 Jul 2020 16:47:17: 31000000 INFO @ Wed, 22 Jul 2020 16:47:22: 25000000 INFO @ Wed, 22 Jul 2020 16:47:22: 32000000 INFO @ Wed, 22 Jul 2020 16:47:22: 35000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:47:26: 26000000 INFO @ Wed, 22 Jul 2020 16:47:27: 33000000 INFO @ Wed, 22 Jul 2020 16:47:28: 36000000 INFO @ Wed, 22 Jul 2020 16:47:31: 27000000 INFO @ Wed, 22 Jul 2020 16:47:31: 34000000 INFO @ Wed, 22 Jul 2020 16:47:33: 37000000 INFO @ Wed, 22 Jul 2020 16:47:36: 28000000 INFO @ Wed, 22 Jul 2020 16:47:36: 35000000 INFO @ Wed, 22 Jul 2020 16:47:38: 38000000 INFO @ Wed, 22 Jul 2020 16:47:41: 29000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:47:41: 36000000 INFO @ Wed, 22 Jul 2020 16:47:43: 39000000 INFO @ Wed, 22 Jul 2020 16:47:45: 30000000 INFO @ Wed, 22 Jul 2020 16:47:46: 37000000 INFO @ Wed, 22 Jul 2020 16:47:48: 40000000 INFO @ Wed, 22 Jul 2020 16:47:50: 31000000 INFO @ Wed, 22 Jul 2020 16:47:50: 38000000 INFO @ Wed, 22 Jul 2020 16:47:54: 41000000 INFO @ Wed, 22 Jul 2020 16:47:55: 32000000 INFO @ Wed, 22 Jul 2020 16:47:55: 39000000 INFO @ Wed, 22 Jul 2020 16:47:59: 42000000 INFO @ Wed, 22 Jul 2020 16:47:59: 33000000 INFO @ Wed, 22 Jul 2020 16:48:00: 40000000 INFO @ Wed, 22 Jul 2020 16:48:04: 43000000 INFO @ Wed, 22 Jul 2020 16:48:04: 34000000 INFO @ Wed, 22 Jul 2020 16:48:04: 41000000 INFO @ Wed, 22 Jul 2020 16:48:09: 35000000 INFO @ Wed, 22 Jul 2020 16:48:09: 42000000 INFO @ Wed, 22 Jul 2020 16:48:09: 44000000 INFO @ Wed, 22 Jul 2020 16:48:14: 36000000 INFO @ Wed, 22 Jul 2020 16:48:14: 43000000 INFO @ Wed, 22 Jul 2020 16:48:15: 45000000 INFO @ Wed, 22 Jul 2020 16:48:18: 37000000 INFO @ Wed, 22 Jul 2020 16:48:18: 44000000 INFO @ Wed, 22 Jul 2020 16:48:20: 46000000 INFO @ Wed, 22 Jul 2020 16:48:23: 38000000 INFO @ Wed, 22 Jul 2020 16:48:23: 45000000 INFO @ Wed, 22 Jul 2020 16:48:25: 47000000 INFO @ Wed, 22 Jul 2020 16:48:28: 39000000 INFO @ Wed, 22 Jul 2020 16:48:28: 46000000 INFO @ Wed, 22 Jul 2020 16:48:30: 48000000 INFO @ Wed, 22 Jul 2020 16:48:32: 40000000 INFO @ Wed, 22 Jul 2020 16:48:33: 47000000 INFO @ Wed, 22 Jul 2020 16:48:33: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:48:33: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:48:33: #1 total tags in treatment: 23754305 INFO @ Wed, 22 Jul 2020 16:48:33: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:48:33: #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 16:48:34: #1 tags after filtering in treatment: 14134982 INFO @ Wed, 22 Jul 2020 16:48:34: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Jul 2020 16:48:34: #1 finished! INFO @ Wed, 22 Jul 2020 16:48:34: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:48:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:48:34: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:48:34: 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 Jul 2020 16:48:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.05_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/SRX8639588/SRX8639588.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:48:37: 41000000 INFO @ Wed, 22 Jul 2020 16:48:37: 48000000 INFO @ Wed, 22 Jul 2020 16:48:40: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:48:40: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:48:40: #1 total tags in treatment: 23754305 INFO @ Wed, 22 Jul 2020 16:48:40: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:48:40: #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 16:48:41: #1 tags after filtering in treatment: 14134982 INFO @ Wed, 22 Jul 2020 16:48:41: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Jul 2020 16:48:41: #1 finished! INFO @ Wed, 22 Jul 2020 16:48:41: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:48:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:48:41: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:48:41: 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 16:48:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.10_peaks.narrowPeak: No such file or directory INFO @ Wed, 22 Jul 2020 16:48:42: 42000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:48:46: 43000000 INFO @ Wed, 22 Jul 2020 16:48:50: 44000000 INFO @ Wed, 22 Jul 2020 16:48:55: 45000000 INFO @ Wed, 22 Jul 2020 16:48:59: 46000000 INFO @ Wed, 22 Jul 2020 16:49:04: 47000000 INFO @ Wed, 22 Jul 2020 16:49:08: 48000000 INFO @ Wed, 22 Jul 2020 16:49:10: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:49:10: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:49:10: #1 total tags in treatment: 23754305 INFO @ Wed, 22 Jul 2020 16:49:10: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:49:10: #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 16:49:11: #1 tags after filtering in treatment: 14134982 INFO @ Wed, 22 Jul 2020 16:49:11: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Jul 2020 16:49:11: #1 finished! INFO @ Wed, 22 Jul 2020 16:49:11: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:49:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:49:12: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:49:12: 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 16:49:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.20_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/SRX8639588/SRX8639588.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639588/SRX8639588.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling