Job ID = 6527893 SRX = SRX3159465 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:52:45 prefetch.2.10.7: 1) Downloading 'SRR6004195'... 2020-06-29T13:52:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:55:01 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:55:02 prefetch.2.10.7: 'SRR6004195' is valid 2020-06-29T13:55:02 prefetch.2.10.7: 1) 'SRR6004195' was downloaded successfully 2020-06-29T13:55:02 prefetch.2.10.7: 'SRR6004195' has 0 unresolved dependencies Read 27487907 spots for SRR6004195/SRR6004195.sra Written 27487907 spots for SRR6004195/SRR6004195.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: 00:10:12 27487907 reads; of these: 27487907 (100.00%) were unpaired; of these: 651220 (2.37%) aligned 0 times 18505769 (67.32%) aligned exactly 1 time 8330918 (30.31%) aligned >1 times 97.63% overall alignment rate Time searching: 00:10:12 Overall time: 00:10:12 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 12 files... [bam_rmdupse_core] 3747735 / 26836687 = 0.1396 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 23:16:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.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 23:16:48: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:16:48: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:16:53: 1000000 INFO @ Mon, 29 Jun 2020 23:16:59: 2000000 INFO @ Mon, 29 Jun 2020 23:17:04: 3000000 INFO @ Mon, 29 Jun 2020 23:17:10: 4000000 INFO @ Mon, 29 Jun 2020 23:17:16: 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 23:17:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.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 23:17:18: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:17:18: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:17:21: 6000000 INFO @ Mon, 29 Jun 2020 23:17:24: 1000000 INFO @ Mon, 29 Jun 2020 23:17:28: 7000000 INFO @ Mon, 29 Jun 2020 23:17:29: 2000000 INFO @ Mon, 29 Jun 2020 23:17:34: 8000000 INFO @ Mon, 29 Jun 2020 23:17:35: 3000000 INFO @ Mon, 29 Jun 2020 23:17:40: 9000000 INFO @ Mon, 29 Jun 2020 23:17:41: 4000000 INFO @ Mon, 29 Jun 2020 23:17:46: 10000000 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 23:17:47: 5000000 INFO @ Mon, 29 Jun 2020 23:17:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.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 23:17:48: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:17:48: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:17:52: 11000000 INFO @ Mon, 29 Jun 2020 23:17:53: 6000000 INFO @ Mon, 29 Jun 2020 23:17:54: 1000000 INFO @ Mon, 29 Jun 2020 23:17:58: 12000000 INFO @ Mon, 29 Jun 2020 23:17:59: 7000000 INFO @ Mon, 29 Jun 2020 23:17:59: 2000000 INFO @ Mon, 29 Jun 2020 23:18:04: 13000000 INFO @ Mon, 29 Jun 2020 23:18:05: 8000000 INFO @ Mon, 29 Jun 2020 23:18:05: 3000000 INFO @ Mon, 29 Jun 2020 23:18:10: 14000000 INFO @ Mon, 29 Jun 2020 23:18:11: 9000000 INFO @ Mon, 29 Jun 2020 23:18:11: 4000000 INFO @ Mon, 29 Jun 2020 23:18:16: 15000000 INFO @ Mon, 29 Jun 2020 23:18:17: 10000000 INFO @ Mon, 29 Jun 2020 23:18:17: 5000000 INFO @ Mon, 29 Jun 2020 23:18:22: 16000000 INFO @ Mon, 29 Jun 2020 23:18:23: 11000000 INFO @ Mon, 29 Jun 2020 23:18:23: 6000000 INFO @ Mon, 29 Jun 2020 23:18:28: 17000000 INFO @ Mon, 29 Jun 2020 23:18:28: 12000000 INFO @ Mon, 29 Jun 2020 23:18:29: 7000000 INFO @ Mon, 29 Jun 2020 23:18:33: 18000000 INFO @ Mon, 29 Jun 2020 23:18:34: 13000000 INFO @ Mon, 29 Jun 2020 23:18:34: 8000000 INFO @ Mon, 29 Jun 2020 23:18:39: 19000000 INFO @ Mon, 29 Jun 2020 23:18:40: 14000000 INFO @ Mon, 29 Jun 2020 23:18:40: 9000000 INFO @ Mon, 29 Jun 2020 23:18:45: 20000000 INFO @ Mon, 29 Jun 2020 23:18:46: 15000000 INFO @ Mon, 29 Jun 2020 23:18:46: 10000000 INFO @ Mon, 29 Jun 2020 23:18:51: 21000000 INFO @ Mon, 29 Jun 2020 23:18:52: 16000000 INFO @ Mon, 29 Jun 2020 23:18:52: 11000000 INFO @ Mon, 29 Jun 2020 23:18:57: 22000000 INFO @ Mon, 29 Jun 2020 23:18:57: 17000000 INFO @ Mon, 29 Jun 2020 23:18:58: 12000000 INFO @ Mon, 29 Jun 2020 23:19:03: 23000000 INFO @ Mon, 29 Jun 2020 23:19:03: 18000000 INFO @ Mon, 29 Jun 2020 23:19:03: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:19:03: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:19:03: #1 total tags in treatment: 23088952 INFO @ Mon, 29 Jun 2020 23:19:03: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:19:03: #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 23:19:04: 13000000 INFO @ Mon, 29 Jun 2020 23:19:04: #1 tags after filtering in treatment: 23088952 INFO @ Mon, 29 Jun 2020 23:19:04: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:19:04: #1 finished! INFO @ Mon, 29 Jun 2020 23:19:04: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:19:04: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:19:05: #2 number of paired peaks: 25 WARNING @ Mon, 29 Jun 2020 23:19:05: Too few paired peaks (25) 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 23:19:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.05_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/SRX3159465/SRX3159465.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:19:09: 19000000 INFO @ Mon, 29 Jun 2020 23:19:09: 14000000 INFO @ Mon, 29 Jun 2020 23:19:15: 20000000 INFO @ Mon, 29 Jun 2020 23:19:15: 15000000 INFO @ Mon, 29 Jun 2020 23:19:21: 21000000 INFO @ Mon, 29 Jun 2020 23:19:21: 16000000 INFO @ Mon, 29 Jun 2020 23:19:26: 22000000 INFO @ Mon, 29 Jun 2020 23:19:27: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:19:32: 23000000 INFO @ Mon, 29 Jun 2020 23:19:32: 18000000 INFO @ Mon, 29 Jun 2020 23:19:33: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:19:33: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:19:33: #1 total tags in treatment: 23088952 INFO @ Mon, 29 Jun 2020 23:19:33: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:19:33: #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 23:19:33: #1 tags after filtering in treatment: 23088952 INFO @ Mon, 29 Jun 2020 23:19:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:19:33: #1 finished! INFO @ Mon, 29 Jun 2020 23:19:33: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:19:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:19:35: #2 number of paired peaks: 25 WARNING @ Mon, 29 Jun 2020 23:19:35: Too few paired peaks (25) 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 23:19:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.10_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/SRX3159465/SRX3159465.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:19:38: 19000000 INFO @ Mon, 29 Jun 2020 23:19:43: 20000000 INFO @ Mon, 29 Jun 2020 23:19:49: 21000000 INFO @ Mon, 29 Jun 2020 23:19:54: 22000000 INFO @ Mon, 29 Jun 2020 23:20:00: 23000000 INFO @ Mon, 29 Jun 2020 23:20:01: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:20:01: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:20:01: #1 total tags in treatment: 23088952 INFO @ Mon, 29 Jun 2020 23:20:01: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:20:01: #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 23:20:01: #1 tags after filtering in treatment: 23088952 INFO @ Mon, 29 Jun 2020 23:20:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:20:01: #1 finished! INFO @ Mon, 29 Jun 2020 23:20:01: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:20:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:20:02: #2 number of paired peaks: 25 WARNING @ Mon, 29 Jun 2020 23:20:02: Too few paired peaks (25) 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 23:20:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.20_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/SRX3159465/SRX3159465.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159465/SRX3159465.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。