Job ID = 7117903 SRX = SRX8639556 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:47:00 prefetch.2.10.7: 1) Downloading 'SRR12116994'... 2020-07-22T06:47:00 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:48:26 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:48:26 prefetch.2.10.7: 1) 'SRR12116994' was downloaded successfully 2020-07-22T06:48:26 prefetch.2.10.7: 'SRR12116994' has 0 unresolved dependencies Read 20115314 spots for SRR12116994/SRR12116994.sra Written 20115314 spots for SRR12116994/SRR12116994.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: 00:09:14 20115314 reads; of these: 20115314 (100.00%) were paired; of these: 5256048 (26.13%) aligned concordantly 0 times 13000680 (64.63%) aligned concordantly exactly 1 time 1858586 (9.24%) aligned concordantly >1 times ---- 5256048 pairs aligned concordantly 0 times; of these: 85515 (1.63%) aligned discordantly 1 time ---- 5170533 pairs aligned 0 times concordantly or discordantly; of these: 10341066 mates make up the pairs; of these: 10119847 (97.86%) aligned 0 times 161328 (1.56%) aligned exactly 1 time 59891 (0.58%) aligned >1 times 74.85% overall alignment rate Time searching: 00:09:14 Overall time: 00:09:14 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] 265641 / 14928896 = 0.0178 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 16:05:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.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 16:05:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:05:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:32: 1000000 INFO @ Wed, 22 Jul 2020 16:05:37: 2000000 INFO @ Wed, 22 Jul 2020 16:05:42: 3000000 INFO @ Wed, 22 Jul 2020 16:05:46: 4000000 INFO @ Wed, 22 Jul 2020 16:05:51: 5000000 INFO @ Wed, 22 Jul 2020 16:05:55: 6000000 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 16:05:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.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 16:05:58: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:05:58: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:59: 7000000 INFO @ Wed, 22 Jul 2020 16:06:03: 1000000 INFO @ Wed, 22 Jul 2020 16:06:04: 8000000 INFO @ Wed, 22 Jul 2020 16:06:07: 2000000 INFO @ Wed, 22 Jul 2020 16:06:09: 9000000 INFO @ Wed, 22 Jul 2020 16:06:12: 3000000 INFO @ Wed, 22 Jul 2020 16:06:13: 10000000 INFO @ Wed, 22 Jul 2020 16:06:16: 4000000 INFO @ Wed, 22 Jul 2020 16:06:18: 11000000 INFO @ Wed, 22 Jul 2020 16:06:21: 5000000 INFO @ Wed, 22 Jul 2020 16:06:23: 12000000 INFO @ Wed, 22 Jul 2020 16:06:26: 6000000 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 16:06:27: 13000000 INFO @ Wed, 22 Jul 2020 16:06:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.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 16:06:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:06:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:06:31: 7000000 INFO @ Wed, 22 Jul 2020 16:06:32: 14000000 INFO @ Wed, 22 Jul 2020 16:06:33: 1000000 INFO @ Wed, 22 Jul 2020 16:06:35: 8000000 INFO @ Wed, 22 Jul 2020 16:06:37: 15000000 INFO @ Wed, 22 Jul 2020 16:06:38: 2000000 INFO @ Wed, 22 Jul 2020 16:06:40: 9000000 INFO @ Wed, 22 Jul 2020 16:06:42: 16000000 INFO @ Wed, 22 Jul 2020 16:06:43: 3000000 INFO @ Wed, 22 Jul 2020 16:06:45: 10000000 INFO @ Wed, 22 Jul 2020 16:06:47: 17000000 INFO @ Wed, 22 Jul 2020 16:06:47: 4000000 INFO @ Wed, 22 Jul 2020 16:06:50: 11000000 INFO @ Wed, 22 Jul 2020 16:06:52: 18000000 INFO @ Wed, 22 Jul 2020 16:06:52: 5000000 INFO @ Wed, 22 Jul 2020 16:06:54: 12000000 INFO @ Wed, 22 Jul 2020 16:06:56: 19000000 INFO @ Wed, 22 Jul 2020 16:06:57: 6000000 INFO @ Wed, 22 Jul 2020 16:06:59: 13000000 INFO @ Wed, 22 Jul 2020 16:07:01: 20000000 INFO @ Wed, 22 Jul 2020 16:07:02: 7000000 INFO @ Wed, 22 Jul 2020 16:07:04: 14000000 INFO @ Wed, 22 Jul 2020 16:07:06: 21000000 INFO @ Wed, 22 Jul 2020 16:07:07: 8000000 INFO @ Wed, 22 Jul 2020 16:07:09: 15000000 INFO @ Wed, 22 Jul 2020 16:07:11: 22000000 INFO @ Wed, 22 Jul 2020 16:07:12: 9000000 INFO @ Wed, 22 Jul 2020 16:07:14: 16000000 INFO @ Wed, 22 Jul 2020 16:07:16: 23000000 INFO @ Wed, 22 Jul 2020 16:07:17: 10000000 INFO @ Wed, 22 Jul 2020 16:07:19: 17000000 INFO @ Wed, 22 Jul 2020 16:07:21: 24000000 INFO @ Wed, 22 Jul 2020 16:07:21: 11000000 INFO @ Wed, 22 Jul 2020 16:07:24: 18000000 INFO @ Wed, 22 Jul 2020 16:07:25: 25000000 INFO @ Wed, 22 Jul 2020 16:07:26: 12000000 INFO @ Wed, 22 Jul 2020 16:07:29: 19000000 INFO @ Wed, 22 Jul 2020 16:07:30: 26000000 INFO @ Wed, 22 Jul 2020 16:07:31: 13000000 INFO @ Wed, 22 Jul 2020 16:07:33: 20000000 INFO @ Wed, 22 Jul 2020 16:07:35: 27000000 INFO @ Wed, 22 Jul 2020 16:07:36: 14000000 INFO @ Wed, 22 Jul 2020 16:07:38: 21000000 INFO @ Wed, 22 Jul 2020 16:07:40: 28000000 INFO @ Wed, 22 Jul 2020 16:07:41: 15000000 INFO @ Wed, 22 Jul 2020 16:07:43: 22000000 INFO @ Wed, 22 Jul 2020 16:07:45: 29000000 INFO @ Wed, 22 Jul 2020 16:07:46: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:07:48: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:07:48: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:07:48: #1 total tags in treatment: 14593742 INFO @ Wed, 22 Jul 2020 16:07:48: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:07:48: #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 16:07:48: #1 tags after filtering in treatment: 10229694 INFO @ Wed, 22 Jul 2020 16:07:48: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 16:07:48: #1 finished! INFO @ Wed, 22 Jul 2020 16:07:48: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:07:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:07:48: 23000000 INFO @ Wed, 22 Jul 2020 16:07:48: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:07:48: 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 16:07:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.05_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/SRX8639556/SRX8639556.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:07:50: 17000000 INFO @ Wed, 22 Jul 2020 16:07:53: 24000000 INFO @ Wed, 22 Jul 2020 16:07:55: 18000000 INFO @ Wed, 22 Jul 2020 16:07:57: 25000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:08:00: 19000000 INFO @ Wed, 22 Jul 2020 16:08:02: 26000000 INFO @ Wed, 22 Jul 2020 16:08:05: 20000000 INFO @ Wed, 22 Jul 2020 16:08:07: 27000000 INFO @ Wed, 22 Jul 2020 16:08:09: 21000000 INFO @ Wed, 22 Jul 2020 16:08:12: 28000000 INFO @ Wed, 22 Jul 2020 16:08:14: 22000000 INFO @ Wed, 22 Jul 2020 16:08:17: 29000000 INFO @ Wed, 22 Jul 2020 16:08:19: 23000000 INFO @ Wed, 22 Jul 2020 16:08:20: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:08:20: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:08:20: #1 total tags in treatment: 14593742 INFO @ Wed, 22 Jul 2020 16:08:20: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:08:20: #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 16:08:20: #1 tags after filtering in treatment: 10229694 INFO @ Wed, 22 Jul 2020 16:08:20: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 16:08:20: #1 finished! INFO @ Wed, 22 Jul 2020 16:08:20: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:08:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:08:21: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:08:21: 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 16:08:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.10_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/SRX8639556/SRX8639556.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:08:24: 24000000 INFO @ Wed, 22 Jul 2020 16:08:28: 25000000 INFO @ Wed, 22 Jul 2020 16:08:33: 26000000 INFO @ Wed, 22 Jul 2020 16:08:37: 27000000 INFO @ Wed, 22 Jul 2020 16:08:42: 28000000 INFO @ Wed, 22 Jul 2020 16:08:47: 29000000 INFO @ Wed, 22 Jul 2020 16:08:49: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:08:49: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:08:49: #1 total tags in treatment: 14593742 INFO @ Wed, 22 Jul 2020 16:08:49: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:08:49: #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 16:08:50: #1 tags after filtering in treatment: 10229694 INFO @ Wed, 22 Jul 2020 16:08:50: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 16:08:50: #1 finished! INFO @ Wed, 22 Jul 2020 16:08:50: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:08:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:08:50: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:08:50: 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 16:08:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.20_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/SRX8639556/SRX8639556.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639556/SRX8639556.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling