Job ID = 6527480 SRX = SRX025482 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 'SRR063885'... 2020-06-29T12:48:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:50:31 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:50:32 prefetch.2.10.7: 'SRR063885' is valid 2020-06-29T12:50:32 prefetch.2.10.7: 1) 'SRR063885' was downloaded successfully Read 24057117 spots for SRR063885/SRR063885.sra Written 24057117 spots for SRR063885/SRR063885.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:02 24057117 reads; of these: 24057117 (100.00%) were unpaired; of these: 1730529 (7.19%) aligned 0 times 17214911 (71.56%) aligned exactly 1 time 5111677 (21.25%) aligned >1 times 92.81% overall alignment rate Time searching: 00:05:03 Overall time: 00:05:03 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] 8393549 / 22326588 = 0.3759 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 22:04:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.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 22:04:07: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:04:07: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:04:12: 1000000 INFO @ Mon, 29 Jun 2020 22:04:18: 2000000 INFO @ Mon, 29 Jun 2020 22:04:23: 3000000 INFO @ Mon, 29 Jun 2020 22:04:28: 4000000 INFO @ Mon, 29 Jun 2020 22:04:33: 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 22:04:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.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 22:04:37: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:04:37: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:04:38: 6000000 INFO @ Mon, 29 Jun 2020 22:04:43: 1000000 INFO @ Mon, 29 Jun 2020 22:04:44: 7000000 INFO @ Mon, 29 Jun 2020 22:04:48: 2000000 INFO @ Mon, 29 Jun 2020 22:04:49: 8000000 INFO @ Mon, 29 Jun 2020 22:04:54: 3000000 INFO @ Mon, 29 Jun 2020 22:04:54: 9000000 INFO @ Mon, 29 Jun 2020 22:04:59: 4000000 INFO @ Mon, 29 Jun 2020 22:05:00: 10000000 INFO @ Mon, 29 Jun 2020 22:05:04: 5000000 INFO @ Mon, 29 Jun 2020 22:05:05: 11000000 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 22:05:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.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 22:05:07: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:05:07: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:05:10: 6000000 INFO @ Mon, 29 Jun 2020 22:05:10: 12000000 INFO @ Mon, 29 Jun 2020 22:05:13: 1000000 INFO @ Mon, 29 Jun 2020 22:05:15: 7000000 INFO @ Mon, 29 Jun 2020 22:05:16: 13000000 INFO @ Mon, 29 Jun 2020 22:05:18: 2000000 INFO @ Mon, 29 Jun 2020 22:05:20: 8000000 INFO @ Mon, 29 Jun 2020 22:05:21: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:05:21: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:05:21: #1 total tags in treatment: 13933039 INFO @ Mon, 29 Jun 2020 22:05:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:05:21: #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 22:05:21: #1 tags after filtering in treatment: 13933039 INFO @ Mon, 29 Jun 2020 22:05:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:05:21: #1 finished! INFO @ Mon, 29 Jun 2020 22:05:21: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:05:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:05:22: #2 number of paired peaks: 89 WARNING @ Mon, 29 Jun 2020 22:05:22: Too few paired peaks (89) 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 22:05:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.05_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/SRX025482/SRX025482.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:05:23: 3000000 INFO @ Mon, 29 Jun 2020 22:05:26: 9000000 INFO @ Mon, 29 Jun 2020 22:05:29: 4000000 INFO @ Mon, 29 Jun 2020 22:05:31: 10000000 INFO @ Mon, 29 Jun 2020 22:05:34: 5000000 INFO @ Mon, 29 Jun 2020 22:05:37: 11000000 INFO @ Mon, 29 Jun 2020 22:05:39: 6000000 INFO @ Mon, 29 Jun 2020 22:05:42: 12000000 INFO @ Mon, 29 Jun 2020 22:05:45: 7000000 INFO @ Mon, 29 Jun 2020 22:05:48: 13000000 INFO @ Mon, 29 Jun 2020 22:05:50: 8000000 INFO @ Mon, 29 Jun 2020 22:05:53: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:05:53: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:05:53: #1 total tags in treatment: 13933039 INFO @ Mon, 29 Jun 2020 22:05:53: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:05:53: #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 22:05:53: #1 tags after filtering in treatment: 13933039 INFO @ Mon, 29 Jun 2020 22:05:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:05:53: #1 finished! INFO @ Mon, 29 Jun 2020 22:05:53: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:05:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:05:54: #2 number of paired peaks: 89 WARNING @ Mon, 29 Jun 2020 22:05:54: Too few paired peaks (89) 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 22:05:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.10_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/SRX025482/SRX025482.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:05:55: 9000000 INFO @ Mon, 29 Jun 2020 22:06:01: 10000000 INFO @ Mon, 29 Jun 2020 22:06:06: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:06:11: 12000000 INFO @ Mon, 29 Jun 2020 22:06:17: 13000000 INFO @ Mon, 29 Jun 2020 22:06:22: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:06:22: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:06:22: #1 total tags in treatment: 13933039 INFO @ Mon, 29 Jun 2020 22:06:22: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:06:22: #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 22:06:22: #1 tags after filtering in treatment: 13933039 INFO @ Mon, 29 Jun 2020 22:06:22: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:06:22: #1 finished! INFO @ Mon, 29 Jun 2020 22:06:22: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:06:22: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:06:23: #2 number of paired peaks: 89 WARNING @ Mon, 29 Jun 2020 22:06:23: Too few paired peaks (89) 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 22:06:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.20_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/SRX025482/SRX025482.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025482/SRX025482.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。