Job ID = 7116527 SRX = SRX8639479 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:16:32 prefetch.2.10.7: 1) Downloading 'SRR12117043'... 2020-07-22T06:16:32 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:18:50 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:18:50 prefetch.2.10.7: 1) 'SRR12117043' was downloaded successfully 2020-07-22T06:18:50 prefetch.2.10.7: 'SRR12117043' has 0 unresolved dependencies Read 23863309 spots for SRR12117043/SRR12117043.sra Written 23863309 spots for SRR12117043/SRR12117043.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: 00:08:36 23863309 reads; of these: 23863309 (100.00%) were paired; of these: 10804185 (45.28%) aligned concordantly 0 times 12006489 (50.31%) aligned concordantly exactly 1 time 1052635 (4.41%) aligned concordantly >1 times ---- 10804185 pairs aligned concordantly 0 times; of these: 507802 (4.70%) aligned discordantly 1 time ---- 10296383 pairs aligned 0 times concordantly or discordantly; of these: 20592766 mates make up the pairs; of these: 20343210 (98.79%) aligned 0 times 149836 (0.73%) aligned exactly 1 time 99720 (0.48%) aligned >1 times 57.38% overall alignment rate Time searching: 00:08:36 Overall time: 00:08:36 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] 146618 / 13533158 = 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 15:35:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.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 15:35:17: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:35:17: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:35:23: 1000000 INFO @ Wed, 22 Jul 2020 15:35:29: 2000000 INFO @ Wed, 22 Jul 2020 15:35:35: 3000000 INFO @ Wed, 22 Jul 2020 15:35:41: 4000000 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 15:35:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.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 15:35:47: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:35:47: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:35:47: 5000000 INFO @ Wed, 22 Jul 2020 15:35:53: 1000000 INFO @ Wed, 22 Jul 2020 15:35:55: 6000000 INFO @ Wed, 22 Jul 2020 15:36:00: 2000000 INFO @ Wed, 22 Jul 2020 15:36:02: 7000000 INFO @ Wed, 22 Jul 2020 15:36:07: 3000000 INFO @ Wed, 22 Jul 2020 15:36:10: 8000000 INFO @ Wed, 22 Jul 2020 15:36:13: 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 15:36:17: 9000000 INFO @ Wed, 22 Jul 2020 15:36:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.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 15:36:17: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:36:17: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:36:20: 5000000 INFO @ Wed, 22 Jul 2020 15:36:24: 10000000 INFO @ Wed, 22 Jul 2020 15:36:24: 1000000 INFO @ Wed, 22 Jul 2020 15:36:27: 6000000 INFO @ Wed, 22 Jul 2020 15:36:30: 11000000 INFO @ Wed, 22 Jul 2020 15:36:31: 2000000 INFO @ Wed, 22 Jul 2020 15:36:34: 7000000 INFO @ Wed, 22 Jul 2020 15:36:37: 12000000 INFO @ Wed, 22 Jul 2020 15:36:38: 3000000 INFO @ Wed, 22 Jul 2020 15:36:41: 8000000 INFO @ Wed, 22 Jul 2020 15:36:44: 13000000 INFO @ Wed, 22 Jul 2020 15:36:44: 4000000 INFO @ Wed, 22 Jul 2020 15:36:48: 9000000 INFO @ Wed, 22 Jul 2020 15:36:51: 14000000 INFO @ Wed, 22 Jul 2020 15:36:51: 5000000 INFO @ Wed, 22 Jul 2020 15:36:55: 10000000 INFO @ Wed, 22 Jul 2020 15:36:58: 15000000 INFO @ Wed, 22 Jul 2020 15:36:58: 6000000 INFO @ Wed, 22 Jul 2020 15:37:02: 11000000 INFO @ Wed, 22 Jul 2020 15:37:05: 7000000 INFO @ Wed, 22 Jul 2020 15:37:05: 16000000 INFO @ Wed, 22 Jul 2020 15:37:09: 12000000 INFO @ Wed, 22 Jul 2020 15:37:12: 8000000 INFO @ Wed, 22 Jul 2020 15:37:13: 17000000 INFO @ Wed, 22 Jul 2020 15:37:17: 13000000 INFO @ Wed, 22 Jul 2020 15:37:19: 9000000 INFO @ Wed, 22 Jul 2020 15:37:20: 18000000 INFO @ Wed, 22 Jul 2020 15:37:23: 14000000 INFO @ Wed, 22 Jul 2020 15:37:27: 10000000 INFO @ Wed, 22 Jul 2020 15:37:28: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:37:30: 15000000 INFO @ Wed, 22 Jul 2020 15:37:34: 11000000 INFO @ Wed, 22 Jul 2020 15:37:35: 20000000 INFO @ Wed, 22 Jul 2020 15:37:37: 16000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:37:42: 12000000 INFO @ Wed, 22 Jul 2020 15:37:43: 21000000 INFO @ Wed, 22 Jul 2020 15:37:44: 17000000 INFO @ Wed, 22 Jul 2020 15:37:49: 13000000 INFO @ Wed, 22 Jul 2020 15:37:50: 22000000 INFO @ Wed, 22 Jul 2020 15:37:50: 18000000 INFO @ Wed, 22 Jul 2020 15:37:56: 14000000 INFO @ Wed, 22 Jul 2020 15:37:57: 19000000 INFO @ Wed, 22 Jul 2020 15:37:57: 23000000 INFO @ Wed, 22 Jul 2020 15:38:03: 15000000 INFO @ Wed, 22 Jul 2020 15:38:04: 20000000 INFO @ Wed, 22 Jul 2020 15:38:05: 24000000 INFO @ Wed, 22 Jul 2020 15:38:10: 16000000 INFO @ Wed, 22 Jul 2020 15:38:11: 21000000 INFO @ Wed, 22 Jul 2020 15:38:13: 25000000 INFO @ Wed, 22 Jul 2020 15:38:17: 17000000 INFO @ Wed, 22 Jul 2020 15:38:17: 22000000 INFO @ Wed, 22 Jul 2020 15:38:20: 26000000 INFO @ Wed, 22 Jul 2020 15:38:24: 18000000 INFO @ Wed, 22 Jul 2020 15:38:24: 23000000 INFO @ Wed, 22 Jul 2020 15:38:27: 27000000 INFO @ Wed, 22 Jul 2020 15:38:28: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:38:28: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:38:28: #1 total tags in treatment: 12914773 INFO @ Wed, 22 Jul 2020 15:38:28: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:38:28: #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 15:38:28: #1 tags after filtering in treatment: 8483383 INFO @ Wed, 22 Jul 2020 15:38:28: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:38:28: #1 finished! INFO @ Wed, 22 Jul 2020 15:38:28: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:38:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:38:28: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:38:28: 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 15:38:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.05_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/SRX8639479/SRX8639479.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:38:30: 19000000 INFO @ Wed, 22 Jul 2020 15:38:31: 24000000 INFO @ Wed, 22 Jul 2020 15:38:37: 20000000 INFO @ Wed, 22 Jul 2020 15:38:38: 25000000 INFO @ Wed, 22 Jul 2020 15:38:43: 21000000 INFO @ Wed, 22 Jul 2020 15:38:45: 26000000 INFO @ Wed, 22 Jul 2020 15:38:50: 22000000 INFO @ Wed, 22 Jul 2020 15:38:52: 27000000 INFO @ Wed, 22 Jul 2020 15:38:53: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:38:53: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:38:53: #1 total tags in treatment: 12914773 INFO @ Wed, 22 Jul 2020 15:38:53: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:38:53: #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 15:38:53: #1 tags after filtering in treatment: 8483383 INFO @ Wed, 22 Jul 2020 15:38:53: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:38:53: #1 finished! INFO @ Wed, 22 Jul 2020 15:38:53: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:38:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:38:53: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:38:53: 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 15:38:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.10_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/SRX8639479/SRX8639479.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:38:56: 23000000 INFO @ Wed, 22 Jul 2020 15:39:02: 24000000 INFO @ Wed, 22 Jul 2020 15:39:08: 25000000 INFO @ Wed, 22 Jul 2020 15:39:15: 26000000 INFO @ Wed, 22 Jul 2020 15:39:21: 27000000 INFO @ Wed, 22 Jul 2020 15:39:22: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:39:22: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:39:22: #1 total tags in treatment: 12914773 INFO @ Wed, 22 Jul 2020 15:39:22: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:39:22: #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 15:39:22: #1 tags after filtering in treatment: 8483383 INFO @ Wed, 22 Jul 2020 15:39:22: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:39:22: #1 finished! INFO @ Wed, 22 Jul 2020 15:39:22: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:39:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:39:23: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:39:23: 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 15:39:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.20_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/SRX8639479/SRX8639479.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639479/SRX8639479.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling