Job ID = 6527541 SRX = SRX1084159 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:48:57 prefetch.2.10.7: 1) Downloading 'SRR2088905'... 2020-06-29T12:48:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:53:59 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:53:59 prefetch.2.10.7: 1) 'SRR2088905' was downloaded successfully Read 21591397 spots for SRR2088905/SRR2088905.sra Written 21591397 spots for SRR2088905/SRR2088905.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: 00:05:43 21591397 reads; of these: 21591397 (100.00%) were unpaired; of these: 5369916 (24.87%) aligned 0 times 12859459 (59.56%) aligned exactly 1 time 3362022 (15.57%) aligned >1 times 75.13% overall alignment rate Time searching: 00:05:43 Overall time: 00:05:43 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 8 files... [bam_rmdupse_core] 1056023 / 16221481 = 0.0651 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 22:09:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.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 22:09:59: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:09:59: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:10:07: 1000000 INFO @ Mon, 29 Jun 2020 22:10:14: 2000000 INFO @ Mon, 29 Jun 2020 22:10:21: 3000000 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 22:10:28: 4000000 INFO @ Mon, 29 Jun 2020 22:10:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.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 22:10:29: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:10:29: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:10:35: 5000000 INFO @ Mon, 29 Jun 2020 22:10:36: 1000000 INFO @ Mon, 29 Jun 2020 22:10:43: 6000000 INFO @ Mon, 29 Jun 2020 22:10:43: 2000000 INFO @ Mon, 29 Jun 2020 22:10:50: 3000000 INFO @ Mon, 29 Jun 2020 22:10:51: 7000000 INFO @ Mon, 29 Jun 2020 22:10:57: 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 @ Mon, 29 Jun 2020 22:10:58: 8000000 INFO @ Mon, 29 Jun 2020 22:10:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.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 22:10:59: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:10:59: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:11:04: 5000000 INFO @ Mon, 29 Jun 2020 22:11:06: 1000000 INFO @ Mon, 29 Jun 2020 22:11:06: 9000000 INFO @ Mon, 29 Jun 2020 22:11:11: 6000000 INFO @ Mon, 29 Jun 2020 22:11:12: 2000000 INFO @ Mon, 29 Jun 2020 22:11:14: 10000000 INFO @ Mon, 29 Jun 2020 22:11:18: 3000000 INFO @ Mon, 29 Jun 2020 22:11:19: 7000000 INFO @ Mon, 29 Jun 2020 22:11:22: 11000000 INFO @ Mon, 29 Jun 2020 22:11:25: 4000000 INFO @ Mon, 29 Jun 2020 22:11:26: 8000000 INFO @ Mon, 29 Jun 2020 22:11:29: 12000000 INFO @ Mon, 29 Jun 2020 22:11:31: 5000000 INFO @ Mon, 29 Jun 2020 22:11:33: 9000000 INFO @ Mon, 29 Jun 2020 22:11:36: 13000000 INFO @ Mon, 29 Jun 2020 22:11:38: 6000000 INFO @ Mon, 29 Jun 2020 22:11:40: 10000000 INFO @ Mon, 29 Jun 2020 22:11:43: 14000000 INFO @ Mon, 29 Jun 2020 22:11:44: 7000000 INFO @ Mon, 29 Jun 2020 22:11:48: 11000000 INFO @ Mon, 29 Jun 2020 22:11:50: 15000000 INFO @ Mon, 29 Jun 2020 22:11:51: 8000000 INFO @ Mon, 29 Jun 2020 22:11:52: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 22:11:52: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 22:11:52: #1 total tags in treatment: 15165458 INFO @ Mon, 29 Jun 2020 22:11:52: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:11:52: #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 22:11:52: #1 tags after filtering in treatment: 15165458 INFO @ Mon, 29 Jun 2020 22:11:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:11:52: #1 finished! INFO @ Mon, 29 Jun 2020 22:11:52: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:11:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:11:53: #2 number of paired peaks: 77 WARNING @ Mon, 29 Jun 2020 22:11:53: Too few paired peaks (77) 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 22:11:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.05_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/SRX1084159/SRX1084159.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:11:55: 12000000 INFO @ Mon, 29 Jun 2020 22:11:57: 9000000 INFO @ Mon, 29 Jun 2020 22:12:02: 13000000 INFO @ Mon, 29 Jun 2020 22:12:04: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:12:10: 14000000 INFO @ Mon, 29 Jun 2020 22:12:10: 11000000 INFO @ Mon, 29 Jun 2020 22:12:17: 12000000 INFO @ Mon, 29 Jun 2020 22:12:17: 15000000 INFO @ Mon, 29 Jun 2020 22:12:18: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 22:12:18: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 22:12:18: #1 total tags in treatment: 15165458 INFO @ Mon, 29 Jun 2020 22:12:18: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:12:18: #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 22:12:18: #1 tags after filtering in treatment: 15165458 INFO @ Mon, 29 Jun 2020 22:12:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:12:18: #1 finished! INFO @ Mon, 29 Jun 2020 22:12:18: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:12:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:12:19: #2 number of paired peaks: 77 WARNING @ Mon, 29 Jun 2020 22:12:19: Too few paired peaks (77) 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 22:12:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.10_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/SRX1084159/SRX1084159.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:12:23: 13000000 INFO @ Mon, 29 Jun 2020 22:12:29: 14000000 INFO @ Mon, 29 Jun 2020 22:12:35: 15000000 INFO @ Mon, 29 Jun 2020 22:12:36: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 22:12:36: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 22:12:36: #1 total tags in treatment: 15165458 INFO @ Mon, 29 Jun 2020 22:12:36: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:12:36: #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 22:12:36: #1 tags after filtering in treatment: 15165458 INFO @ Mon, 29 Jun 2020 22:12:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:12:36: #1 finished! INFO @ Mon, 29 Jun 2020 22:12:36: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:12:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:12:37: #2 number of paired peaks: 77 WARNING @ Mon, 29 Jun 2020 22:12:37: Too few paired peaks (77) 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 22:12:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.20_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/dm3/SRX1084159/SRX1084159.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084159/SRX1084159.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。