Job ID = 7116672 SRX = SRX8639482 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:16:59 prefetch.2.10.7: 1) Downloading 'SRR12117046'... 2020-07-22T06:16:59 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:19:21 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:19:21 prefetch.2.10.7: 1) 'SRR12117046' was downloaded successfully 2020-07-22T06:19:21 prefetch.2.10.7: 'SRR12117046' has 0 unresolved dependencies Read 26150289 spots for SRR12117046/SRR12117046.sra Written 26150289 spots for SRR12117046/SRR12117046.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: 00:07:28 26150289 reads; of these: 26150289 (100.00%) were paired; of these: 14882284 (56.91%) aligned concordantly 0 times 10348162 (39.57%) aligned concordantly exactly 1 time 919843 (3.52%) aligned concordantly >1 times ---- 14882284 pairs aligned concordantly 0 times; of these: 342093 (2.30%) aligned discordantly 1 time ---- 14540191 pairs aligned 0 times concordantly or discordantly; of these: 29080382 mates make up the pairs; of these: 28813630 (99.08%) aligned 0 times 188312 (0.65%) aligned exactly 1 time 78440 (0.27%) aligned >1 times 44.91% overall alignment rate Time searching: 00:07:28 Overall time: 00:07:28 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 12 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] 125038 / 11582334 = 0.0108 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 15:33:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.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 15:33:57: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:33:57: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:34:02: 1000000 INFO @ Wed, 22 Jul 2020 15:34:07: 2000000 INFO @ Wed, 22 Jul 2020 15:34:12: 3000000 INFO @ Wed, 22 Jul 2020 15:34:17: 4000000 INFO @ Wed, 22 Jul 2020 15:34:23: 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 15:34:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.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 15:34:27: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:34:27: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:34:28: 6000000 INFO @ Wed, 22 Jul 2020 15:34:34: 1000000 INFO @ Wed, 22 Jul 2020 15:34:34: 7000000 INFO @ Wed, 22 Jul 2020 15:34:40: 8000000 INFO @ Wed, 22 Jul 2020 15:34:41: 2000000 INFO @ Wed, 22 Jul 2020 15:34:47: 9000000 INFO @ Wed, 22 Jul 2020 15:34:48: 3000000 INFO @ Wed, 22 Jul 2020 15:34:53: 10000000 INFO @ Wed, 22 Jul 2020 15:34:55: 4000000 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 15:34:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.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 15:34:57: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:34:57: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:34:59: 11000000 INFO @ Wed, 22 Jul 2020 15:35:02: 5000000 INFO @ Wed, 22 Jul 2020 15:35:04: 1000000 INFO @ Wed, 22 Jul 2020 15:35:05: 12000000 INFO @ Wed, 22 Jul 2020 15:35:09: 6000000 INFO @ Wed, 22 Jul 2020 15:35:10: 2000000 INFO @ Wed, 22 Jul 2020 15:35:12: 13000000 INFO @ Wed, 22 Jul 2020 15:35:17: 3000000 INFO @ Wed, 22 Jul 2020 15:35:17: 7000000 INFO @ Wed, 22 Jul 2020 15:35:18: 14000000 INFO @ Wed, 22 Jul 2020 15:35:23: 4000000 INFO @ Wed, 22 Jul 2020 15:35:24: 8000000 INFO @ Wed, 22 Jul 2020 15:35:25: 15000000 INFO @ Wed, 22 Jul 2020 15:35:30: 5000000 INFO @ Wed, 22 Jul 2020 15:35:31: 9000000 INFO @ Wed, 22 Jul 2020 15:35:31: 16000000 INFO @ Wed, 22 Jul 2020 15:35:36: 6000000 INFO @ Wed, 22 Jul 2020 15:35:38: 17000000 INFO @ Wed, 22 Jul 2020 15:35:38: 10000000 INFO @ Wed, 22 Jul 2020 15:35:42: 7000000 INFO @ Wed, 22 Jul 2020 15:35:44: 18000000 INFO @ Wed, 22 Jul 2020 15:35:45: 11000000 INFO @ Wed, 22 Jul 2020 15:35:49: 8000000 INFO @ Wed, 22 Jul 2020 15:35:50: 19000000 INFO @ Wed, 22 Jul 2020 15:35:52: 12000000 INFO @ Wed, 22 Jul 2020 15:35:55: 9000000 INFO @ Wed, 22 Jul 2020 15:35:57: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:36:00: 13000000 INFO @ Wed, 22 Jul 2020 15:36:02: 10000000 INFO @ Wed, 22 Jul 2020 15:36:03: 21000000 INFO @ Wed, 22 Jul 2020 15:36:07: 14000000 INFO @ Wed, 22 Jul 2020 15:36:08: 11000000 INFO @ Wed, 22 Jul 2020 15:36:10: 22000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:36:14: 15000000 INFO @ Wed, 22 Jul 2020 15:36:15: 12000000 INFO @ Wed, 22 Jul 2020 15:36:16: 23000000 INFO @ Wed, 22 Jul 2020 15:36:18: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:36:18: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:36:18: #1 total tags in treatment: 11144524 INFO @ Wed, 22 Jul 2020 15:36:18: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:36:18: #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 15:36:18: #1 tags after filtering in treatment: 7699446 INFO @ Wed, 22 Jul 2020 15:36:18: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 15:36:18: #1 finished! INFO @ Wed, 22 Jul 2020 15:36:18: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:36:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:36:18: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:36:18: 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 15:36:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.05_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/SRX8639482/SRX8639482.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:36:21: 16000000 INFO @ Wed, 22 Jul 2020 15:36:21: 13000000 INFO @ Wed, 22 Jul 2020 15:36:27: 14000000 INFO @ Wed, 22 Jul 2020 15:36:28: 17000000 INFO @ Wed, 22 Jul 2020 15:36:34: 15000000 INFO @ Wed, 22 Jul 2020 15:36:35: 18000000 INFO @ Wed, 22 Jul 2020 15:36:40: 16000000 INFO @ Wed, 22 Jul 2020 15:36:41: 19000000 INFO @ Wed, 22 Jul 2020 15:36:46: 17000000 INFO @ Wed, 22 Jul 2020 15:36:48: 20000000 INFO @ Wed, 22 Jul 2020 15:36:52: 18000000 INFO @ Wed, 22 Jul 2020 15:36:55: 21000000 INFO @ Wed, 22 Jul 2020 15:36:59: 19000000 INFO @ Wed, 22 Jul 2020 15:37:02: 22000000 INFO @ Wed, 22 Jul 2020 15:37:05: 20000000 INFO @ Wed, 22 Jul 2020 15:37:09: 23000000 INFO @ Wed, 22 Jul 2020 15:37:11: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:37:11: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:37:11: #1 total tags in treatment: 11144524 INFO @ Wed, 22 Jul 2020 15:37:11: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:37:11: #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 15:37:11: #1 tags after filtering in treatment: 7699446 INFO @ Wed, 22 Jul 2020 15:37:11: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 15:37:11: #1 finished! INFO @ Wed, 22 Jul 2020 15:37:11: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:37:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:37:11: 21000000 INFO @ Wed, 22 Jul 2020 15:37:11: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:37:11: 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 15:37:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.10_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/SRX8639482/SRX8639482.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:37:17: 22000000 INFO @ Wed, 22 Jul 2020 15:37:22: 23000000 INFO @ Wed, 22 Jul 2020 15:37:23: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:37:23: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:37:23: #1 total tags in treatment: 11144524 INFO @ Wed, 22 Jul 2020 15:37:23: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:37:23: #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 15:37:23: #1 tags after filtering in treatment: 7699446 INFO @ Wed, 22 Jul 2020 15:37:23: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 15:37:23: #1 finished! INFO @ Wed, 22 Jul 2020 15:37:23: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:37:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:37:24: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:37:24: 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 15:37:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.20_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/SRX8639482/SRX8639482.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639482/SRX8639482.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling