Job ID = 7115794 SRX = SRX8639460 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:12:28 prefetch.2.10.7: 1) Downloading 'SRR12117032'... 2020-07-22T06:12:28 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:14:23 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:14:23 prefetch.2.10.7: 1) 'SRR12117032' was downloaded successfully 2020-07-22T06:14:23 prefetch.2.10.7: 'SRR12117032' has 0 unresolved dependencies Read 24226924 spots for SRR12117032/SRR12117032.sra Written 24226924 spots for SRR12117032/SRR12117032.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: 00:10:55 24226924 reads; of these: 24226924 (100.00%) were paired; of these: 5209779 (21.50%) aligned concordantly 0 times 16857762 (69.58%) aligned concordantly exactly 1 time 2159383 (8.91%) aligned concordantly >1 times ---- 5209779 pairs aligned concordantly 0 times; of these: 129468 (2.49%) aligned discordantly 1 time ---- 5080311 pairs aligned 0 times concordantly or discordantly; of these: 10160622 mates make up the pairs; of these: 9918568 (97.62%) aligned 0 times 175385 (1.73%) aligned exactly 1 time 66669 (0.66%) aligned >1 times 79.53% overall alignment rate Time searching: 00:10:55 Overall time: 00:10:55 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 16 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] 323347 / 19116345 = 0.0169 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 15:35:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.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 15:35:18: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:35:18: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:35:23: 1000000 INFO @ Wed, 22 Jul 2020 15:35:28: 2000000 INFO @ Wed, 22 Jul 2020 15:35:32: 3000000 INFO @ Wed, 22 Jul 2020 15:35:37: 4000000 INFO @ Wed, 22 Jul 2020 15:35:42: 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 15:35:46: 6000000 INFO @ Wed, 22 Jul 2020 15:35:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.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 15:35:48: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:35:48: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:35:51: 7000000 INFO @ Wed, 22 Jul 2020 15:35:53: 1000000 INFO @ Wed, 22 Jul 2020 15:35:57: 8000000 INFO @ Wed, 22 Jul 2020 15:35:59: 2000000 INFO @ Wed, 22 Jul 2020 15:36:02: 9000000 INFO @ Wed, 22 Jul 2020 15:36:05: 3000000 INFO @ Wed, 22 Jul 2020 15:36:07: 10000000 INFO @ Wed, 22 Jul 2020 15:36:11: 4000000 INFO @ Wed, 22 Jul 2020 15:36:12: 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 15:36:16: 5000000 INFO @ Wed, 22 Jul 2020 15:36:18: 12000000 INFO @ Wed, 22 Jul 2020 15:36:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.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 15:36:18: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:36:18: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:36:22: 6000000 INFO @ Wed, 22 Jul 2020 15:36:23: 13000000 INFO @ Wed, 22 Jul 2020 15:36:24: 1000000 INFO @ Wed, 22 Jul 2020 15:36:27: 7000000 INFO @ Wed, 22 Jul 2020 15:36:29: 14000000 INFO @ Wed, 22 Jul 2020 15:36:29: 2000000 INFO @ Wed, 22 Jul 2020 15:36:33: 8000000 INFO @ Wed, 22 Jul 2020 15:36:34: 15000000 INFO @ Wed, 22 Jul 2020 15:36:35: 3000000 INFO @ Wed, 22 Jul 2020 15:36:39: 9000000 INFO @ Wed, 22 Jul 2020 15:36:40: 16000000 INFO @ Wed, 22 Jul 2020 15:36:41: 4000000 INFO @ Wed, 22 Jul 2020 15:36:45: 10000000 INFO @ Wed, 22 Jul 2020 15:36:45: 17000000 INFO @ Wed, 22 Jul 2020 15:36:46: 5000000 INFO @ Wed, 22 Jul 2020 15:36:50: 11000000 INFO @ Wed, 22 Jul 2020 15:36:51: 18000000 INFO @ Wed, 22 Jul 2020 15:36:52: 6000000 INFO @ Wed, 22 Jul 2020 15:36:56: 12000000 INFO @ Wed, 22 Jul 2020 15:36:56: 19000000 INFO @ Wed, 22 Jul 2020 15:36:58: 7000000 INFO @ Wed, 22 Jul 2020 15:37:01: 13000000 INFO @ Wed, 22 Jul 2020 15:37:02: 20000000 INFO @ Wed, 22 Jul 2020 15:37:03: 8000000 INFO @ Wed, 22 Jul 2020 15:37:07: 14000000 INFO @ Wed, 22 Jul 2020 15:37:07: 21000000 INFO @ Wed, 22 Jul 2020 15:37:09: 9000000 INFO @ Wed, 22 Jul 2020 15:37:13: 22000000 INFO @ Wed, 22 Jul 2020 15:37:13: 15000000 INFO @ Wed, 22 Jul 2020 15:37:14: 10000000 INFO @ Wed, 22 Jul 2020 15:37:18: 23000000 INFO @ Wed, 22 Jul 2020 15:37:19: 16000000 INFO @ Wed, 22 Jul 2020 15:37:20: 11000000 INFO @ Wed, 22 Jul 2020 15:37:24: 24000000 INFO @ Wed, 22 Jul 2020 15:37:25: 17000000 INFO @ Wed, 22 Jul 2020 15:37:25: 12000000 INFO @ Wed, 22 Jul 2020 15:37:30: 25000000 INFO @ Wed, 22 Jul 2020 15:37:31: 13000000 INFO @ Wed, 22 Jul 2020 15:37:31: 18000000 INFO @ Wed, 22 Jul 2020 15:37:35: 26000000 INFO @ Wed, 22 Jul 2020 15:37:37: 14000000 INFO @ Wed, 22 Jul 2020 15:37:37: 19000000 INFO @ Wed, 22 Jul 2020 15:37:41: 27000000 INFO @ Wed, 22 Jul 2020 15:37:42: 15000000 INFO @ Wed, 22 Jul 2020 15:37:43: 20000000 INFO @ Wed, 22 Jul 2020 15:37:46: 28000000 INFO @ Wed, 22 Jul 2020 15:37:48: 16000000 INFO @ Wed, 22 Jul 2020 15:37:49: 21000000 INFO @ Wed, 22 Jul 2020 15:37:52: 29000000 INFO @ Wed, 22 Jul 2020 15:37:53: 17000000 INFO @ Wed, 22 Jul 2020 15:37:55: 22000000 INFO @ Wed, 22 Jul 2020 15:37:57: 30000000 INFO @ Wed, 22 Jul 2020 15:37:59: 18000000 INFO @ Wed, 22 Jul 2020 15:38:01: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:38:03: 31000000 INFO @ Wed, 22 Jul 2020 15:38:04: 19000000 INFO @ Wed, 22 Jul 2020 15:38:07: 24000000 INFO @ Wed, 22 Jul 2020 15:38:08: 32000000 INFO @ Wed, 22 Jul 2020 15:38:10: 20000000 INFO @ Wed, 22 Jul 2020 15:38:13: 25000000 INFO @ Wed, 22 Jul 2020 15:38:14: 33000000 INFO @ Wed, 22 Jul 2020 15:38:15: 21000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:38:19: 26000000 INFO @ Wed, 22 Jul 2020 15:38:19: 34000000 INFO @ Wed, 22 Jul 2020 15:38:21: 22000000 INFO @ Wed, 22 Jul 2020 15:38:25: 35000000 INFO @ Wed, 22 Jul 2020 15:38:25: 27000000 INFO @ Wed, 22 Jul 2020 15:38:27: 23000000 INFO @ Wed, 22 Jul 2020 15:38:31: 36000000 INFO @ Wed, 22 Jul 2020 15:38:31: 28000000 INFO @ Wed, 22 Jul 2020 15:38:32: 24000000 INFO @ Wed, 22 Jul 2020 15:38:36: 37000000 INFO @ Wed, 22 Jul 2020 15:38:37: 29000000 INFO @ Wed, 22 Jul 2020 15:38:38: 25000000 INFO @ Wed, 22 Jul 2020 15:38:41: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:38:41: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:38:41: #1 total tags in treatment: 18693952 INFO @ Wed, 22 Jul 2020 15:38:41: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:38:41: #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 15:38:41: #1 tags after filtering in treatment: 12192522 INFO @ Wed, 22 Jul 2020 15:38:41: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 15:38:41: #1 finished! INFO @ Wed, 22 Jul 2020 15:38:41: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:38:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:38:42: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:38:42: 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 15:38:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.05_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/SRX8639460/SRX8639460.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:38:43: 26000000 INFO @ Wed, 22 Jul 2020 15:38:43: 30000000 INFO @ Wed, 22 Jul 2020 15:38:48: 27000000 INFO @ Wed, 22 Jul 2020 15:38:49: 31000000 INFO @ Wed, 22 Jul 2020 15:38:54: 28000000 INFO @ Wed, 22 Jul 2020 15:38:55: 32000000 INFO @ Wed, 22 Jul 2020 15:38:59: 29000000 INFO @ Wed, 22 Jul 2020 15:39:01: 33000000 INFO @ Wed, 22 Jul 2020 15:39:04: 30000000 INFO @ Wed, 22 Jul 2020 15:39:07: 34000000 INFO @ Wed, 22 Jul 2020 15:39:10: 31000000 INFO @ Wed, 22 Jul 2020 15:39:13: 35000000 INFO @ Wed, 22 Jul 2020 15:39:15: 32000000 INFO @ Wed, 22 Jul 2020 15:39:19: 36000000 INFO @ Wed, 22 Jul 2020 15:39:20: 33000000 INFO @ Wed, 22 Jul 2020 15:39:25: 37000000 INFO @ Wed, 22 Jul 2020 15:39:26: 34000000 INFO @ Wed, 22 Jul 2020 15:39:30: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:39:30: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:39:30: #1 total tags in treatment: 18693952 INFO @ Wed, 22 Jul 2020 15:39:30: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:39:30: #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 15:39:31: #1 tags after filtering in treatment: 12192522 INFO @ Wed, 22 Jul 2020 15:39:31: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 15:39:31: #1 finished! INFO @ Wed, 22 Jul 2020 15:39:31: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:39:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:39:31: 35000000 INFO @ Wed, 22 Jul 2020 15:39:31: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:39:31: 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 Jul 2020 15:39:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.10_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/SRX8639460/SRX8639460.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:39:36: 36000000 INFO @ Wed, 22 Jul 2020 15:39:41: 37000000 INFO @ Wed, 22 Jul 2020 15:39:45: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:39:45: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:39:45: #1 total tags in treatment: 18693952 INFO @ Wed, 22 Jul 2020 15:39:45: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:39:45: #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 15:39:45: #1 tags after filtering in treatment: 12192522 INFO @ Wed, 22 Jul 2020 15:39:45: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 15:39:45: #1 finished! INFO @ Wed, 22 Jul 2020 15:39:45: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:39:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:39:46: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:39:46: 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 15:39:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.20_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/SRX8639460/SRX8639460.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639460/SRX8639460.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling