Job ID = 6527508 SRX = SRX041389 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:34:22 prefetch.2.10.7: 1) Downloading 'SRR099120'... 2020-06-29T12:34:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:36:33 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:36:34 prefetch.2.10.7: 'SRR099120' is valid 2020-06-29T12:36:34 prefetch.2.10.7: 1) 'SRR099120' was downloaded successfully Read 20066347 spots for SRR099120/SRR099120.sra Written 20066347 spots for SRR099120/SRR099120.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: 00:06:21 20066347 reads; of these: 20066347 (100.00%) were unpaired; of these: 840151 (4.19%) aligned 0 times 12930901 (64.44%) aligned exactly 1 time 6295295 (31.37%) aligned >1 times 95.81% overall alignment rate Time searching: 00:06:21 Overall time: 00:06:21 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] 4532615 / 19226196 = 0.2358 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 21:51:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.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 21:51:14: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:51:14: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:51:19: 1000000 INFO @ Mon, 29 Jun 2020 21:51:23: 2000000 INFO @ Mon, 29 Jun 2020 21:51:28: 3000000 INFO @ Mon, 29 Jun 2020 21:51:33: 4000000 INFO @ Mon, 29 Jun 2020 21:51:37: 5000000 INFO @ Mon, 29 Jun 2020 21:51:42: 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 @ Mon, 29 Jun 2020 21:51:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.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 21:51:44: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:51:44: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:51:47: 7000000 INFO @ Mon, 29 Jun 2020 21:51:49: 1000000 INFO @ Mon, 29 Jun 2020 21:51:52: 8000000 INFO @ Mon, 29 Jun 2020 21:51:54: 2000000 INFO @ Mon, 29 Jun 2020 21:51:57: 9000000 INFO @ Mon, 29 Jun 2020 21:51:59: 3000000 INFO @ Mon, 29 Jun 2020 21:52:02: 10000000 INFO @ Mon, 29 Jun 2020 21:52:04: 4000000 INFO @ Mon, 29 Jun 2020 21:52:07: 11000000 INFO @ Mon, 29 Jun 2020 21:52:08: 5000000 INFO @ Mon, 29 Jun 2020 21:52:12: 12000000 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 21:52:13: 6000000 INFO @ Mon, 29 Jun 2020 21:52:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.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 21:52:14: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:52:14: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:52:17: 13000000 INFO @ Mon, 29 Jun 2020 21:52:19: 7000000 INFO @ Mon, 29 Jun 2020 21:52:20: 1000000 INFO @ Mon, 29 Jun 2020 21:52:22: 14000000 INFO @ Mon, 29 Jun 2020 21:52:24: 8000000 INFO @ Mon, 29 Jun 2020 21:52:26: 2000000 INFO @ Mon, 29 Jun 2020 21:52:26: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:52:26: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:52:26: #1 total tags in treatment: 14693581 INFO @ Mon, 29 Jun 2020 21:52:26: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:52:26: #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 21:52:26: #1 tags after filtering in treatment: 14693581 INFO @ Mon, 29 Jun 2020 21:52:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:52:26: #1 finished! INFO @ Mon, 29 Jun 2020 21:52:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:52:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:52:27: #2 number of paired peaks: 49 WARNING @ Mon, 29 Jun 2020 21:52:27: Too few paired peaks (49) 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 21:52:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.05_peaks.narrowPeak: No such file or directory INFO @ Mon, 29 Jun 2020 21:52:29: 9000000 INFO @ Mon, 29 Jun 2020 21:52:32: 3000000 INFO @ Mon, 29 Jun 2020 21:52:34: 10000000 INFO @ Mon, 29 Jun 2020 21:52:37: 4000000 INFO @ Mon, 29 Jun 2020 21:52:39: 11000000 INFO @ Mon, 29 Jun 2020 21:52:43: 5000000 INFO @ Mon, 29 Jun 2020 21:52:45: 12000000 INFO @ Mon, 29 Jun 2020 21:52:49: 6000000 INFO @ Mon, 29 Jun 2020 21:52:50: 13000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:52:54: 7000000 INFO @ Mon, 29 Jun 2020 21:52:55: 14000000 INFO @ Mon, 29 Jun 2020 21:52:58: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:52:58: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:52:58: #1 total tags in treatment: 14693581 INFO @ Mon, 29 Jun 2020 21:52:58: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:52:58: #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 21:52:59: #1 tags after filtering in treatment: 14693581 INFO @ Mon, 29 Jun 2020 21:52:59: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:52:59: #1 finished! INFO @ Mon, 29 Jun 2020 21:52:59: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:52:59: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:53:00: #2 number of paired peaks: 49 WARNING @ Mon, 29 Jun 2020 21:53:00: Too few paired peaks (49) 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 21:53:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.10_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/SRX041389/SRX041389.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:53:00: 8000000 INFO @ Mon, 29 Jun 2020 21:53:05: 9000000 INFO @ Mon, 29 Jun 2020 21:53:11: 10000000 INFO @ Mon, 29 Jun 2020 21:53:16: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 21:53:22: 12000000 INFO @ Mon, 29 Jun 2020 21:53:27: 13000000 INFO @ Mon, 29 Jun 2020 21:53:32: 14000000 INFO @ Mon, 29 Jun 2020 21:53:36: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:53:36: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:53:36: #1 total tags in treatment: 14693581 INFO @ Mon, 29 Jun 2020 21:53:36: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:53:36: #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 21:53:36: #1 tags after filtering in treatment: 14693581 INFO @ Mon, 29 Jun 2020 21:53:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:53:36: #1 finished! INFO @ Mon, 29 Jun 2020 21:53:36: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:53:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:53:37: #2 number of paired peaks: 49 WARNING @ Mon, 29 Jun 2020 21:53:37: Too few paired peaks (49) 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 21:53:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.20_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/SRX041389/SRX041389.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041389/SRX041389.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。