Job ID = 7117631 SRX = SRX8639544 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:41:43 prefetch.2.10.7: 1) Downloading 'SRR12116982'... 2020-07-22T06:41:43 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:48:04 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:48:04 prefetch.2.10.7: 1) 'SRR12116982' was downloaded successfully 2020-07-22T06:48:04 prefetch.2.10.7: 'SRR12116982' has 0 unresolved dependencies Read 25551621 spots for SRR12116982/SRR12116982.sra Written 25551621 spots for SRR12116982/SRR12116982.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: 00:13:24 25551621 reads; of these: 25551621 (100.00%) were paired; of these: 5335197 (20.88%) aligned concordantly 0 times 17853683 (69.87%) aligned concordantly exactly 1 time 2362741 (9.25%) aligned concordantly >1 times ---- 5335197 pairs aligned concordantly 0 times; of these: 103141 (1.93%) aligned discordantly 1 time ---- 5232056 pairs aligned 0 times concordantly or discordantly; of these: 10464112 mates make up the pairs; of these: 10201354 (97.49%) aligned 0 times 197652 (1.89%) aligned exactly 1 time 65106 (0.62%) aligned >1 times 80.04% overall alignment rate Time searching: 00:13:24 Overall time: 00:13:24 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] 412888 / 20296803 = 0.0203 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 16:12:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.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 16:12:21: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:12:21: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:12:27: 1000000 INFO @ Wed, 22 Jul 2020 16:12:32: 2000000 INFO @ Wed, 22 Jul 2020 16:12:37: 3000000 INFO @ Wed, 22 Jul 2020 16:12:42: 4000000 INFO @ Wed, 22 Jul 2020 16:12:47: 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 16:12:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.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 16:12:51: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:12:51: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:12:52: 6000000 INFO @ Wed, 22 Jul 2020 16:12:57: 1000000 INFO @ Wed, 22 Jul 2020 16:12:58: 7000000 INFO @ Wed, 22 Jul 2020 16:13:02: 2000000 INFO @ Wed, 22 Jul 2020 16:13:03: 8000000 INFO @ Wed, 22 Jul 2020 16:13:08: 3000000 INFO @ Wed, 22 Jul 2020 16:13:09: 9000000 INFO @ Wed, 22 Jul 2020 16:13:13: 4000000 INFO @ Wed, 22 Jul 2020 16:13:14: 10000000 INFO @ Wed, 22 Jul 2020 16:13:18: 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 @ Wed, 22 Jul 2020 16:13:20: 11000000 INFO @ Wed, 22 Jul 2020 16:13:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.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 16:13:21: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:13:21: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:13:24: 6000000 INFO @ Wed, 22 Jul 2020 16:13:25: 12000000 INFO @ Wed, 22 Jul 2020 16:13:27: 1000000 INFO @ Wed, 22 Jul 2020 16:13:29: 7000000 INFO @ Wed, 22 Jul 2020 16:13:31: 13000000 INFO @ Wed, 22 Jul 2020 16:13:33: 2000000 INFO @ Wed, 22 Jul 2020 16:13:35: 8000000 INFO @ Wed, 22 Jul 2020 16:13:36: 14000000 INFO @ Wed, 22 Jul 2020 16:13:38: 3000000 INFO @ Wed, 22 Jul 2020 16:13:41: 9000000 INFO @ Wed, 22 Jul 2020 16:13:42: 15000000 INFO @ Wed, 22 Jul 2020 16:13:44: 4000000 INFO @ Wed, 22 Jul 2020 16:13:46: 10000000 INFO @ Wed, 22 Jul 2020 16:13:47: 16000000 INFO @ Wed, 22 Jul 2020 16:13:49: 5000000 INFO @ Wed, 22 Jul 2020 16:13:52: 11000000 INFO @ Wed, 22 Jul 2020 16:13:53: 17000000 INFO @ Wed, 22 Jul 2020 16:13:55: 6000000 INFO @ Wed, 22 Jul 2020 16:13:57: 12000000 INFO @ Wed, 22 Jul 2020 16:13:59: 18000000 INFO @ Wed, 22 Jul 2020 16:14:00: 7000000 INFO @ Wed, 22 Jul 2020 16:14:03: 13000000 INFO @ Wed, 22 Jul 2020 16:14:04: 19000000 INFO @ Wed, 22 Jul 2020 16:14:06: 8000000 INFO @ Wed, 22 Jul 2020 16:14:08: 14000000 INFO @ Wed, 22 Jul 2020 16:14:10: 20000000 INFO @ Wed, 22 Jul 2020 16:14:11: 9000000 INFO @ Wed, 22 Jul 2020 16:14:14: 15000000 INFO @ Wed, 22 Jul 2020 16:14:15: 21000000 INFO @ Wed, 22 Jul 2020 16:14:17: 10000000 INFO @ Wed, 22 Jul 2020 16:14:20: 16000000 INFO @ Wed, 22 Jul 2020 16:14:21: 22000000 INFO @ Wed, 22 Jul 2020 16:14:22: 11000000 INFO @ Wed, 22 Jul 2020 16:14:25: 17000000 INFO @ Wed, 22 Jul 2020 16:14:26: 23000000 INFO @ Wed, 22 Jul 2020 16:14:28: 12000000 INFO @ Wed, 22 Jul 2020 16:14:31: 18000000 INFO @ Wed, 22 Jul 2020 16:14:32: 24000000 INFO @ Wed, 22 Jul 2020 16:14:33: 13000000 INFO @ Wed, 22 Jul 2020 16:14:36: 19000000 INFO @ Wed, 22 Jul 2020 16:14:38: 25000000 INFO @ Wed, 22 Jul 2020 16:14:39: 14000000 INFO @ Wed, 22 Jul 2020 16:14:42: 20000000 INFO @ Wed, 22 Jul 2020 16:14:43: 26000000 INFO @ Wed, 22 Jul 2020 16:14:44: 15000000 INFO @ Wed, 22 Jul 2020 16:14:48: 21000000 INFO @ Wed, 22 Jul 2020 16:14:49: 27000000 INFO @ Wed, 22 Jul 2020 16:14:50: 16000000 INFO @ Wed, 22 Jul 2020 16:14:53: 22000000 INFO @ Wed, 22 Jul 2020 16:14:54: 28000000 INFO @ Wed, 22 Jul 2020 16:14:55: 17000000 INFO @ Wed, 22 Jul 2020 16:14:59: 23000000 INFO @ Wed, 22 Jul 2020 16:15:00: 29000000 INFO @ Wed, 22 Jul 2020 16:15:01: 18000000 INFO @ Wed, 22 Jul 2020 16:15:04: 24000000 INFO @ Wed, 22 Jul 2020 16:15:06: 30000000 INFO @ Wed, 22 Jul 2020 16:15:06: 19000000 INFO @ Wed, 22 Jul 2020 16:15:10: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:15:11: 31000000 INFO @ Wed, 22 Jul 2020 16:15:12: 20000000 INFO @ Wed, 22 Jul 2020 16:15:15: 26000000 INFO @ Wed, 22 Jul 2020 16:15:17: 32000000 INFO @ Wed, 22 Jul 2020 16:15:17: 21000000 INFO @ Wed, 22 Jul 2020 16:15:21: 27000000 INFO @ Wed, 22 Jul 2020 16:15:22: 33000000 INFO @ Wed, 22 Jul 2020 16:15:23: 22000000 INFO @ Wed, 22 Jul 2020 16:15:26: 28000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:15:28: 34000000 INFO @ Wed, 22 Jul 2020 16:15:28: 23000000 INFO @ Wed, 22 Jul 2020 16:15:32: 29000000 INFO @ Wed, 22 Jul 2020 16:15:33: 35000000 INFO @ Wed, 22 Jul 2020 16:15:34: 24000000 INFO @ Wed, 22 Jul 2020 16:15:37: 30000000 INFO @ Wed, 22 Jul 2020 16:15:39: 36000000 INFO @ Wed, 22 Jul 2020 16:15:39: 25000000 INFO @ Wed, 22 Jul 2020 16:15:43: 31000000 INFO @ Wed, 22 Jul 2020 16:15:44: 37000000 INFO @ Wed, 22 Jul 2020 16:15:45: 26000000 INFO @ Wed, 22 Jul 2020 16:15:48: 32000000 INFO @ Wed, 22 Jul 2020 16:15:50: 38000000 INFO @ Wed, 22 Jul 2020 16:15:51: 27000000 INFO @ Wed, 22 Jul 2020 16:15:54: 33000000 INFO @ Wed, 22 Jul 2020 16:15:55: 39000000 INFO @ Wed, 22 Jul 2020 16:15:56: 28000000 INFO @ Wed, 22 Jul 2020 16:15:59: 34000000 INFO @ Wed, 22 Jul 2020 16:16:01: 40000000 INFO @ Wed, 22 Jul 2020 16:16:01: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:16:01: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:16:01: #1 total tags in treatment: 19803658 INFO @ Wed, 22 Jul 2020 16:16:01: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:16:01: #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 16:16:02: 29000000 INFO @ Wed, 22 Jul 2020 16:16:02: #1 tags after filtering in treatment: 12641234 INFO @ Wed, 22 Jul 2020 16:16:02: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 16:16:02: #1 finished! INFO @ Wed, 22 Jul 2020 16:16:02: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:16:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:16:03: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:16:03: 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 16:16:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.05_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/SRX8639544/SRX8639544.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:16:05: 35000000 INFO @ Wed, 22 Jul 2020 16:16:07: 30000000 INFO @ Wed, 22 Jul 2020 16:16:11: 36000000 INFO @ Wed, 22 Jul 2020 16:16:13: 31000000 INFO @ Wed, 22 Jul 2020 16:16:16: 37000000 INFO @ Wed, 22 Jul 2020 16:16:18: 32000000 INFO @ Wed, 22 Jul 2020 16:16:22: 38000000 INFO @ Wed, 22 Jul 2020 16:16:24: 33000000 INFO @ Wed, 22 Jul 2020 16:16:27: 39000000 INFO @ Wed, 22 Jul 2020 16:16:30: 34000000 INFO @ Wed, 22 Jul 2020 16:16:33: 40000000 INFO @ Wed, 22 Jul 2020 16:16:33: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:16:33: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:16:33: #1 total tags in treatment: 19803658 INFO @ Wed, 22 Jul 2020 16:16:33: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:16:33: #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 16:16:33: #1 tags after filtering in treatment: 12641234 INFO @ Wed, 22 Jul 2020 16:16:33: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 16:16:33: #1 finished! INFO @ Wed, 22 Jul 2020 16:16:33: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:16:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:16:34: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:16:34: 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 16:16:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.10_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/SRX8639544/SRX8639544.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:16:35: 35000000 INFO @ Wed, 22 Jul 2020 16:16:40: 36000000 INFO @ Wed, 22 Jul 2020 16:16:45: 37000000 INFO @ Wed, 22 Jul 2020 16:16:51: 38000000 INFO @ Wed, 22 Jul 2020 16:16:56: 39000000 INFO @ Wed, 22 Jul 2020 16:17:01: 40000000 INFO @ Wed, 22 Jul 2020 16:17:01: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:17:01: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:17:01: #1 total tags in treatment: 19803658 INFO @ Wed, 22 Jul 2020 16:17:01: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:17:01: #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 16:17:02: #1 tags after filtering in treatment: 12641234 INFO @ Wed, 22 Jul 2020 16:17:02: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 16:17:02: #1 finished! INFO @ Wed, 22 Jul 2020 16:17:02: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:17:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:17:03: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:17:03: 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 16:17:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.20_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/SRX8639544/SRX8639544.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639544/SRX8639544.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling