Job ID = 6527768 SRX = SRX2734369 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:28:22 prefetch.2.10.7: 1) Downloading 'SRR5445346'... 2020-06-29T13:28:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:31:26 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:31:26 prefetch.2.10.7: 1) 'SRR5445346' was downloaded successfully 2020-06-29T13:31:26 prefetch.2.10.7: 'SRR5445346' has 0 unresolved dependencies Read 35559788 spots for SRR5445346/SRR5445346.sra Written 35559788 spots for SRR5445346/SRR5445346.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: 00:09:25 35559788 reads; of these: 35559788 (100.00%) were unpaired; of these: 1201807 (3.38%) aligned 0 times 28420062 (79.92%) aligned exactly 1 time 5937919 (16.70%) aligned >1 times 96.62% overall alignment rate Time searching: 00:09:25 Overall time: 00:09:25 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 5522816 / 34357981 = 0.1607 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 @ Mon, 29 Jun 2020 22:56:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:56:08: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:56:08: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:56:13: 1000000 INFO @ Mon, 29 Jun 2020 22:56:19: 2000000 INFO @ Mon, 29 Jun 2020 22:56:24: 3000000 INFO @ Mon, 29 Jun 2020 22:56:30: 4000000 INFO @ Mon, 29 Jun 2020 22:56:35: 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 @ Mon, 29 Jun 2020 22:56:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:56:38: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:56:38: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:56:42: 6000000 INFO @ Mon, 29 Jun 2020 22:56:45: 1000000 INFO @ Mon, 29 Jun 2020 22:56:48: 7000000 INFO @ Mon, 29 Jun 2020 22:56:53: 2000000 INFO @ Mon, 29 Jun 2020 22:56:55: 8000000 INFO @ Mon, 29 Jun 2020 22:57:00: 3000000 INFO @ Mon, 29 Jun 2020 22:57:02: 9000000 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 @ Mon, 29 Jun 2020 22:57:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:57:07: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:57:07: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:57:08: 4000000 INFO @ Mon, 29 Jun 2020 22:57:09: 10000000 INFO @ Mon, 29 Jun 2020 22:57:14: 1000000 INFO @ Mon, 29 Jun 2020 22:57:16: 11000000 INFO @ Mon, 29 Jun 2020 22:57:16: 5000000 INFO @ Mon, 29 Jun 2020 22:57:21: 2000000 INFO @ Mon, 29 Jun 2020 22:57:23: 12000000 INFO @ Mon, 29 Jun 2020 22:57:24: 6000000 INFO @ Mon, 29 Jun 2020 22:57:28: 3000000 INFO @ Mon, 29 Jun 2020 22:57:29: 13000000 INFO @ Mon, 29 Jun 2020 22:57:31: 7000000 INFO @ Mon, 29 Jun 2020 22:57:35: 4000000 INFO @ Mon, 29 Jun 2020 22:57:36: 14000000 INFO @ Mon, 29 Jun 2020 22:57:39: 8000000 INFO @ Mon, 29 Jun 2020 22:57:42: 5000000 INFO @ Mon, 29 Jun 2020 22:57:43: 15000000 INFO @ Mon, 29 Jun 2020 22:57:47: 9000000 INFO @ Mon, 29 Jun 2020 22:57:48: 6000000 INFO @ Mon, 29 Jun 2020 22:57:50: 16000000 INFO @ Mon, 29 Jun 2020 22:57:54: 10000000 INFO @ Mon, 29 Jun 2020 22:57:55: 7000000 INFO @ Mon, 29 Jun 2020 22:57:57: 17000000 INFO @ Mon, 29 Jun 2020 22:58:02: 8000000 INFO @ Mon, 29 Jun 2020 22:58:02: 11000000 INFO @ Mon, 29 Jun 2020 22:58:03: 18000000 INFO @ Mon, 29 Jun 2020 22:58:09: 9000000 INFO @ Mon, 29 Jun 2020 22:58:10: 12000000 INFO @ Mon, 29 Jun 2020 22:58:10: 19000000 INFO @ Mon, 29 Jun 2020 22:58:16: 10000000 INFO @ Mon, 29 Jun 2020 22:58:17: 20000000 INFO @ Mon, 29 Jun 2020 22:58:18: 13000000 INFO @ Mon, 29 Jun 2020 22:58:23: 11000000 INFO @ Mon, 29 Jun 2020 22:58:24: 21000000 INFO @ Mon, 29 Jun 2020 22:58:26: 14000000 INFO @ Mon, 29 Jun 2020 22:58:29: 12000000 INFO @ Mon, 29 Jun 2020 22:58:31: 22000000 INFO @ Mon, 29 Jun 2020 22:58:33: 15000000 INFO @ Mon, 29 Jun 2020 22:58:36: 13000000 INFO @ Mon, 29 Jun 2020 22:58:38: 23000000 INFO @ Mon, 29 Jun 2020 22:58:41: 16000000 INFO @ Mon, 29 Jun 2020 22:58:43: 14000000 INFO @ Mon, 29 Jun 2020 22:58:45: 24000000 INFO @ Mon, 29 Jun 2020 22:58:49: 17000000 INFO @ Mon, 29 Jun 2020 22:58:50: 15000000 INFO @ Mon, 29 Jun 2020 22:58:52: 25000000 INFO @ Mon, 29 Jun 2020 22:58:56: 18000000 INFO @ Mon, 29 Jun 2020 22:58:57: 16000000 INFO @ Mon, 29 Jun 2020 22:58:59: 26000000 INFO @ Mon, 29 Jun 2020 22:59:04: 17000000 INFO @ Mon, 29 Jun 2020 22:59:04: 19000000 INFO @ Mon, 29 Jun 2020 22:59:05: 27000000 INFO @ Mon, 29 Jun 2020 22:59:10: 18000000 INFO @ Mon, 29 Jun 2020 22:59:12: 20000000 INFO @ Mon, 29 Jun 2020 22:59:12: 28000000 INFO @ Mon, 29 Jun 2020 22:59:17: 19000000 INFO @ Mon, 29 Jun 2020 22:59:18: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:59:18: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:59:18: #1 total tags in treatment: 28835165 INFO @ Mon, 29 Jun 2020 22:59:18: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:59:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:59:19: #1 tags after filtering in treatment: 28835165 INFO @ Mon, 29 Jun 2020 22:59:19: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:59:19: #1 finished! INFO @ Mon, 29 Jun 2020 22:59:19: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:59:19: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:59:20: 21000000 INFO @ Mon, 29 Jun 2020 22:59:21: #2 number of paired peaks: 85 WARNING @ Mon, 29 Jun 2020 22:59:21: Too few paired peaks (85) 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 @ Mon, 29 Jun 2020 22:59:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.05_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/dm3/SRX2734369/SRX2734369.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:59:24: 20000000 INFO @ Mon, 29 Jun 2020 22:59:27: 22000000 INFO @ Mon, 29 Jun 2020 22:59:31: 21000000 INFO @ Mon, 29 Jun 2020 22:59:35: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:59:38: 22000000 INFO @ Mon, 29 Jun 2020 22:59:42: 24000000 INFO @ Mon, 29 Jun 2020 22:59:45: 23000000 INFO @ Mon, 29 Jun 2020 22:59:50: 25000000 INFO @ Mon, 29 Jun 2020 22:59:51: 24000000 INFO @ Mon, 29 Jun 2020 22:59:57: 26000000 INFO @ Mon, 29 Jun 2020 22:59:58: 25000000 INFO @ Mon, 29 Jun 2020 23:00:05: 26000000 INFO @ Mon, 29 Jun 2020 23:00:05: 27000000 INFO @ Mon, 29 Jun 2020 23:00:12: 27000000 INFO @ Mon, 29 Jun 2020 23:00:13: 28000000 INFO @ Mon, 29 Jun 2020 23:00:18: 28000000 INFO @ Mon, 29 Jun 2020 23:00:19: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:00:19: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:00:19: #1 total tags in treatment: 28835165 INFO @ Mon, 29 Jun 2020 23:00:19: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:00:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:00:20: #1 tags after filtering in treatment: 28835165 INFO @ Mon, 29 Jun 2020 23:00:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:00:20: #1 finished! INFO @ Mon, 29 Jun 2020 23:00:20: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:00:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:00:21: #2 number of paired peaks: 85 WARNING @ Mon, 29 Jun 2020 23:00:21: Too few paired peaks (85) 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 @ Mon, 29 Jun 2020 23:00:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.10_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/dm3/SRX2734369/SRX2734369.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:00:24: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:00:24: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:00:24: #1 total tags in treatment: 28835165 INFO @ Mon, 29 Jun 2020 23:00:24: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:00:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:00:24: #1 tags after filtering in treatment: 28835165 INFO @ Mon, 29 Jun 2020 23:00:24: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:00:24: #1 finished! INFO @ Mon, 29 Jun 2020 23:00:24: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:00:24: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:00:26: #2 number of paired peaks: 85 WARNING @ Mon, 29 Jun 2020 23:00:26: Too few paired peaks (85) 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 @ Mon, 29 Jun 2020 23:00:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.20_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/dm3/SRX2734369/SRX2734369.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2734369/SRX2734369.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。