Job ID = 6527505 SRX = SRX041384 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:58:39 prefetch.2.10.7: 1) Downloading 'SRR099112'... 2020-06-29T12:58:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:59:47 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:59:48 prefetch.2.10.7: 'SRR099112' is valid 2020-06-29T12:59:48 prefetch.2.10.7: 1) 'SRR099112' was downloaded successfully Read 26354692 spots for SRR099112/SRR099112.sra Written 26354692 spots for SRR099112/SRR099112.sra 2020-06-29T13:01:09 prefetch.2.10.7: 1) Downloading 'SRR099113'... 2020-06-29T13:01:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:03:38 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:03:39 prefetch.2.10.7: 'SRR099113' is valid 2020-06-29T13:03:39 prefetch.2.10.7: 1) 'SRR099113' was downloaded successfully Read 23232121 spots for SRR099113/SRR099113.sra Written 23232121 spots for SRR099113/SRR099113.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:13:25 49586813 reads; of these: 49586813 (100.00%) were unpaired; of these: 1081665 (2.18%) aligned 0 times 38292186 (77.22%) aligned exactly 1 time 10212962 (20.60%) aligned >1 times 97.82% overall alignment rate Time searching: 00:13:26 Overall time: 00:13:26 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] 14135558 / 48505148 = 0.2914 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 22:36:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.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 22:36:24: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:36:24: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:36:29: 1000000 INFO @ Mon, 29 Jun 2020 22:36:34: 2000000 INFO @ Mon, 29 Jun 2020 22:36:40: 3000000 INFO @ Mon, 29 Jun 2020 22:36:45: 4000000 INFO @ Mon, 29 Jun 2020 22:36:49: 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 22:36:54: 6000000 INFO @ Mon, 29 Jun 2020 22:36:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.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 22:36:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:36:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:36:59: 7000000 INFO @ Mon, 29 Jun 2020 22:37:00: 1000000 INFO @ Mon, 29 Jun 2020 22:37:04: 8000000 INFO @ Mon, 29 Jun 2020 22:37:05: 2000000 INFO @ Mon, 29 Jun 2020 22:37:09: 9000000 INFO @ Mon, 29 Jun 2020 22:37:11: 3000000 INFO @ Mon, 29 Jun 2020 22:37:14: 10000000 INFO @ Mon, 29 Jun 2020 22:37:16: 4000000 INFO @ Mon, 29 Jun 2020 22:37:19: 11000000 INFO @ Mon, 29 Jun 2020 22:37:21: 5000000 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 22:37:24: 12000000 INFO @ Mon, 29 Jun 2020 22:37:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.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 22:37:25: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:37:25: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:37:27: 6000000 INFO @ Mon, 29 Jun 2020 22:37:29: 13000000 INFO @ Mon, 29 Jun 2020 22:37:30: 1000000 INFO @ Mon, 29 Jun 2020 22:37:32: 7000000 INFO @ Mon, 29 Jun 2020 22:37:35: 14000000 INFO @ Mon, 29 Jun 2020 22:37:35: 2000000 INFO @ Mon, 29 Jun 2020 22:37:37: 8000000 INFO @ Mon, 29 Jun 2020 22:37:40: 15000000 INFO @ Mon, 29 Jun 2020 22:37:40: 3000000 INFO @ Mon, 29 Jun 2020 22:37:42: 9000000 INFO @ Mon, 29 Jun 2020 22:37:45: 16000000 INFO @ Mon, 29 Jun 2020 22:37:45: 4000000 INFO @ Mon, 29 Jun 2020 22:37:48: 10000000 INFO @ Mon, 29 Jun 2020 22:37:50: 17000000 INFO @ Mon, 29 Jun 2020 22:37:51: 5000000 INFO @ Mon, 29 Jun 2020 22:37:53: 11000000 INFO @ Mon, 29 Jun 2020 22:37:55: 18000000 INFO @ Mon, 29 Jun 2020 22:37:56: 6000000 INFO @ Mon, 29 Jun 2020 22:37:58: 12000000 INFO @ Mon, 29 Jun 2020 22:38:00: 19000000 INFO @ Mon, 29 Jun 2020 22:38:01: 7000000 INFO @ Mon, 29 Jun 2020 22:38:03: 13000000 INFO @ Mon, 29 Jun 2020 22:38:05: 20000000 INFO @ Mon, 29 Jun 2020 22:38:06: 8000000 INFO @ Mon, 29 Jun 2020 22:38:09: 14000000 INFO @ Mon, 29 Jun 2020 22:38:10: 21000000 INFO @ Mon, 29 Jun 2020 22:38:11: 9000000 INFO @ Mon, 29 Jun 2020 22:38:14: 15000000 INFO @ Mon, 29 Jun 2020 22:38:15: 22000000 INFO @ Mon, 29 Jun 2020 22:38:16: 10000000 INFO @ Mon, 29 Jun 2020 22:38:20: 16000000 INFO @ Mon, 29 Jun 2020 22:38:21: 23000000 INFO @ Mon, 29 Jun 2020 22:38:22: 11000000 INFO @ Mon, 29 Jun 2020 22:38:25: 17000000 INFO @ Mon, 29 Jun 2020 22:38:26: 24000000 INFO @ Mon, 29 Jun 2020 22:38:27: 12000000 INFO @ Mon, 29 Jun 2020 22:38:30: 18000000 INFO @ Mon, 29 Jun 2020 22:38:31: 25000000 INFO @ Mon, 29 Jun 2020 22:38:32: 13000000 INFO @ Mon, 29 Jun 2020 22:38:36: 19000000 INFO @ Mon, 29 Jun 2020 22:38:37: 26000000 INFO @ Mon, 29 Jun 2020 22:38:37: 14000000 INFO @ Mon, 29 Jun 2020 22:38:41: 20000000 INFO @ Mon, 29 Jun 2020 22:38:42: 27000000 INFO @ Mon, 29 Jun 2020 22:38:43: 15000000 INFO @ Mon, 29 Jun 2020 22:38:46: 21000000 INFO @ Mon, 29 Jun 2020 22:38:48: 28000000 INFO @ Mon, 29 Jun 2020 22:38:48: 16000000 INFO @ Mon, 29 Jun 2020 22:38:51: 22000000 INFO @ Mon, 29 Jun 2020 22:38:53: 17000000 INFO @ Mon, 29 Jun 2020 22:38:53: 29000000 INFO @ Mon, 29 Jun 2020 22:38:57: 23000000 INFO @ Mon, 29 Jun 2020 22:38:58: 18000000 INFO @ Mon, 29 Jun 2020 22:38:58: 30000000 INFO @ Mon, 29 Jun 2020 22:39:02: 24000000 INFO @ Mon, 29 Jun 2020 22:39:03: 19000000 INFO @ Mon, 29 Jun 2020 22:39:04: 31000000 INFO @ Mon, 29 Jun 2020 22:39:07: 25000000 INFO @ Mon, 29 Jun 2020 22:39:08: 20000000 INFO @ Mon, 29 Jun 2020 22:39:09: 32000000 INFO @ Mon, 29 Jun 2020 22:39:13: 26000000 INFO @ Mon, 29 Jun 2020 22:39:13: 21000000 INFO @ Mon, 29 Jun 2020 22:39:14: 33000000 INFO @ Mon, 29 Jun 2020 22:39:18: 27000000 INFO @ Mon, 29 Jun 2020 22:39:18: 22000000 INFO @ Mon, 29 Jun 2020 22:39:19: 34000000 INFO @ Mon, 29 Jun 2020 22:39:21: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:39:21: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:39:21: #1 total tags in treatment: 34369590 INFO @ Mon, 29 Jun 2020 22:39:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:39:21: #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 22:39:22: #1 tags after filtering in treatment: 34369590 INFO @ Mon, 29 Jun 2020 22:39:22: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:39:22: #1 finished! INFO @ Mon, 29 Jun 2020 22:39:22: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:39:22: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:39:23: 28000000 INFO @ Mon, 29 Jun 2020 22:39:24: 23000000 INFO @ Mon, 29 Jun 2020 22:39:24: #2 number of paired peaks: 41 WARNING @ Mon, 29 Jun 2020 22:39:24: Too few paired peaks (41) 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 22:39:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.05_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/SRX041384/SRX041384.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:39:29: 24000000 INFO @ Mon, 29 Jun 2020 22:39:29: 29000000 INFO @ Mon, 29 Jun 2020 22:39:34: 25000000 INFO @ Mon, 29 Jun 2020 22:39:34: 30000000 INFO @ Mon, 29 Jun 2020 22:39:39: 26000000 INFO @ Mon, 29 Jun 2020 22:39:39: 31000000 INFO @ Mon, 29 Jun 2020 22:39:44: 27000000 INFO @ Mon, 29 Jun 2020 22:39:45: 32000000 INFO @ Mon, 29 Jun 2020 22:39:49: 28000000 INFO @ Mon, 29 Jun 2020 22:39:50: 33000000 INFO @ Mon, 29 Jun 2020 22:39:55: 29000000 INFO @ Mon, 29 Jun 2020 22:39:55: 34000000 INFO @ Mon, 29 Jun 2020 22:39:57: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:39:57: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:39:57: #1 total tags in treatment: 34369590 INFO @ Mon, 29 Jun 2020 22:39:57: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:39:57: #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 22:39:58: #1 tags after filtering in treatment: 34369590 INFO @ Mon, 29 Jun 2020 22:39:58: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:39:58: #1 finished! INFO @ Mon, 29 Jun 2020 22:39:58: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:39:58: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:40:00: 30000000 INFO @ Mon, 29 Jun 2020 22:40:00: #2 number of paired peaks: 41 WARNING @ Mon, 29 Jun 2020 22:40:00: Too few paired peaks (41) 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 22:40:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.10_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/SRX041384/SRX041384.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:40:05: 31000000 INFO @ Mon, 29 Jun 2020 22:40:10: 32000000 INFO @ Mon, 29 Jun 2020 22:40:15: 33000000 INFO @ Mon, 29 Jun 2020 22:40:19: 34000000 INFO @ Mon, 29 Jun 2020 22:40:21: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:40:21: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:40:21: #1 total tags in treatment: 34369590 INFO @ Mon, 29 Jun 2020 22:40:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:40:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:40:22: #1 tags after filtering in treatment: 34369590 INFO @ Mon, 29 Jun 2020 22:40:22: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:40:22: #1 finished! INFO @ Mon, 29 Jun 2020 22:40:22: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:40:22: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:40:24: #2 number of paired peaks: 41 WARNING @ Mon, 29 Jun 2020 22:40:24: Too few paired peaks (41) 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 22:40:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.20_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/SRX041384/SRX041384.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041384/SRX041384.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。