Job ID = 16439706 SRX = SRX11716864 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-08-02T06:58:22 prefetch.2.10.7: 1) Downloading 'SRR15414780'... 2022-08-02T06:58:22 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T06:59:18 prefetch.2.10.7: HTTPS download succeed 2022-08-02T06:59:18 prefetch.2.10.7: 1) 'SRR15414780' was downloaded successfully 2022-08-02T06:59:18 prefetch.2.10.7: 'SRR15414780' has 0 unresolved dependencies Read 26107835 spots for SRR15414780/SRR15414780.sra Written 26107835 spots for SRR15414780/SRR15414780.sra fastq に変換しました。 bowtie でマッピング中... Your job 16440051 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:40:42 26107835 reads; of these: 26107835 (100.00%) were paired; of these: 1971109 (7.55%) aligned concordantly 0 times 21187776 (81.15%) aligned concordantly exactly 1 time 2948950 (11.30%) aligned concordantly >1 times ---- 1971109 pairs aligned concordantly 0 times; of these: 879356 (44.61%) aligned discordantly 1 time ---- 1091753 pairs aligned 0 times concordantly or discordantly; of these: 2183506 mates make up the pairs; of these: 1338763 (61.31%) aligned 0 times 488237 (22.36%) aligned exactly 1 time 356506 (16.33%) aligned >1 times 97.44% overall alignment rate Time searching: 00:40:43 Overall time: 00:40:43 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 24 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 4835627 / 24891511 = 0.1943 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:57:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.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 @ Tue, 02 Aug 2022 16:57:51: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:57:51: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:58:02: 1000000 INFO @ Tue, 02 Aug 2022 16:58:12: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:58:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.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 @ Tue, 02 Aug 2022 16:58:19: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:58:19: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:58:22: 3000000 INFO @ Tue, 02 Aug 2022 16:58:30: 1000000 INFO @ Tue, 02 Aug 2022 16:58:32: 4000000 INFO @ Tue, 02 Aug 2022 16:58:41: 2000000 INFO @ Tue, 02 Aug 2022 16:58:43: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:58:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.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 @ Tue, 02 Aug 2022 16:58:49: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:58:49: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:58:52: 3000000 INFO @ Tue, 02 Aug 2022 16:58:54: 6000000 INFO @ Tue, 02 Aug 2022 16:59:02: 1000000 INFO @ Tue, 02 Aug 2022 16:59:03: 4000000 INFO @ Tue, 02 Aug 2022 16:59:06: 7000000 INFO @ Tue, 02 Aug 2022 16:59:15: 5000000 INFO @ Tue, 02 Aug 2022 16:59:16: 2000000 INFO @ Tue, 02 Aug 2022 16:59:17: 8000000 INFO @ Tue, 02 Aug 2022 16:59:27: 6000000 INFO @ Tue, 02 Aug 2022 16:59:28: 3000000 INFO @ Tue, 02 Aug 2022 16:59:29: 9000000 INFO @ Tue, 02 Aug 2022 16:59:38: 7000000 INFO @ Tue, 02 Aug 2022 16:59:40: 4000000 INFO @ Tue, 02 Aug 2022 16:59:40: 10000000 INFO @ Tue, 02 Aug 2022 16:59:50: 8000000 INFO @ Tue, 02 Aug 2022 16:59:51: 11000000 INFO @ Tue, 02 Aug 2022 16:59:52: 5000000 INFO @ Tue, 02 Aug 2022 17:00:02: 9000000 INFO @ Tue, 02 Aug 2022 17:00:02: 12000000 INFO @ Tue, 02 Aug 2022 17:00:04: 6000000 INFO @ Tue, 02 Aug 2022 17:00:13: 10000000 INFO @ Tue, 02 Aug 2022 17:00:13: 13000000 INFO @ Tue, 02 Aug 2022 17:00:16: 7000000 INFO @ Tue, 02 Aug 2022 17:00:24: 14000000 INFO @ Tue, 02 Aug 2022 17:00:24: 11000000 INFO @ Tue, 02 Aug 2022 17:00:28: 8000000 INFO @ Tue, 02 Aug 2022 17:00:34: 15000000 INFO @ Tue, 02 Aug 2022 17:00:36: 12000000 INFO @ Tue, 02 Aug 2022 17:00:40: 9000000 INFO @ Tue, 02 Aug 2022 17:00:43: 16000000 INFO @ Tue, 02 Aug 2022 17:00:47: 13000000 INFO @ Tue, 02 Aug 2022 17:00:52: 10000000 INFO @ Tue, 02 Aug 2022 17:00:54: 17000000 INFO @ Tue, 02 Aug 2022 17:00:57: 14000000 INFO @ Tue, 02 Aug 2022 17:01:04: 18000000 INFO @ Tue, 02 Aug 2022 17:01:05: 11000000 INFO @ Tue, 02 Aug 2022 17:01:09: 15000000 INFO @ Tue, 02 Aug 2022 17:01:15: 19000000 INFO @ Tue, 02 Aug 2022 17:01:18: 12000000 INFO @ Tue, 02 Aug 2022 17:01:20: 16000000 INFO @ Tue, 02 Aug 2022 17:01:25: 20000000 INFO @ Tue, 02 Aug 2022 17:01:31: 13000000 INFO @ Tue, 02 Aug 2022 17:01:31: 17000000 INFO @ Tue, 02 Aug 2022 17:01:36: 21000000 INFO @ Tue, 02 Aug 2022 17:01:43: 18000000 INFO @ Tue, 02 Aug 2022 17:01:44: 14000000 INFO @ Tue, 02 Aug 2022 17:01:47: 22000000 INFO @ Tue, 02 Aug 2022 17:01:55: 19000000 INFO @ Tue, 02 Aug 2022 17:01:57: 15000000 INFO @ Tue, 02 Aug 2022 17:01:58: 23000000 INFO @ Tue, 02 Aug 2022 17:02:07: 20000000 INFO @ Tue, 02 Aug 2022 17:02:08: 24000000 INFO @ Tue, 02 Aug 2022 17:02:09: 16000000 INFO @ Tue, 02 Aug 2022 17:02:18: 21000000 INFO @ Tue, 02 Aug 2022 17:02:19: 25000000 INFO @ Tue, 02 Aug 2022 17:02:21: 17000000 INFO @ Tue, 02 Aug 2022 17:02:29: 22000000 INFO @ Tue, 02 Aug 2022 17:02:29: 26000000 INFO @ Tue, 02 Aug 2022 17:02:34: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 17:02:40: 23000000 INFO @ Tue, 02 Aug 2022 17:02:40: 27000000 INFO @ Tue, 02 Aug 2022 17:02:47: 19000000 INFO @ Tue, 02 Aug 2022 17:02:50: 28000000 INFO @ Tue, 02 Aug 2022 17:02:51: 24000000 INFO @ Tue, 02 Aug 2022 17:03:00: 20000000 INFO @ Tue, 02 Aug 2022 17:03:00: 29000000 INFO @ Tue, 02 Aug 2022 17:03:02: 25000000 INFO @ Tue, 02 Aug 2022 17:03:11: 30000000 INFO @ Tue, 02 Aug 2022 17:03:13: 21000000 INFO @ Tue, 02 Aug 2022 17:03:14: 26000000 INFO @ Tue, 02 Aug 2022 17:03:21: 31000000 INFO @ Tue, 02 Aug 2022 17:03:24: 27000000 INFO @ Tue, 02 Aug 2022 17:03:26: 22000000 INFO @ Tue, 02 Aug 2022 17:03:32: 32000000 INFO @ Tue, 02 Aug 2022 17:03:35: 28000000 INFO @ Tue, 02 Aug 2022 17:03:38: 23000000 INFO @ Tue, 02 Aug 2022 17:03:43: 33000000 INFO @ Tue, 02 Aug 2022 17:03:46: 29000000 INFO @ Tue, 02 Aug 2022 17:03:50: 24000000 INFO @ Tue, 02 Aug 2022 17:03:54: 34000000 INFO @ Tue, 02 Aug 2022 17:03:57: 30000000 INFO @ Tue, 02 Aug 2022 17:04:03: 25000000 INFO @ Tue, 02 Aug 2022 17:04:04: 35000000 INFO @ Tue, 02 Aug 2022 17:04:08: 31000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 17:04:14: 36000000 INFO @ Tue, 02 Aug 2022 17:04:15: 26000000 INFO @ Tue, 02 Aug 2022 17:04:19: 32000000 INFO @ Tue, 02 Aug 2022 17:04:25: 37000000 INFO @ Tue, 02 Aug 2022 17:04:27: 27000000 INFO @ Tue, 02 Aug 2022 17:04:30: 33000000 INFO @ Tue, 02 Aug 2022 17:04:35: 38000000 INFO @ Tue, 02 Aug 2022 17:04:39: 28000000 INFO @ Tue, 02 Aug 2022 17:04:40: 34000000 INFO @ Tue, 02 Aug 2022 17:04:45: 39000000 INFO @ Tue, 02 Aug 2022 17:04:50: 35000000 INFO @ Tue, 02 Aug 2022 17:04:51: 29000000 INFO @ Tue, 02 Aug 2022 17:04:55: 40000000 INFO @ Tue, 02 Aug 2022 17:05:00: 36000000 INFO @ Tue, 02 Aug 2022 17:05:03: 30000000 INFO @ Tue, 02 Aug 2022 17:05:05: 41000000 INFO @ Tue, 02 Aug 2022 17:05:07: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 17:05:07: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 17:05:07: #1 total tags in treatment: 19405826 INFO @ Tue, 02 Aug 2022 17:05:07: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 17:05:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 17:05:07: #1 tags after filtering in treatment: 14165353 INFO @ Tue, 02 Aug 2022 17:05:07: #1 Redundant rate of treatment: 0.27 INFO @ Tue, 02 Aug 2022 17:05:07: #1 finished! INFO @ Tue, 02 Aug 2022 17:05:07: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 17:05:07: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 17:05:09: #2 number of paired peaks: 11 WARNING @ Tue, 02 Aug 2022 17:05:09: Too few paired peaks (11) 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 @ Tue, 02 Aug 2022 17:05:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.05_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/SRX11716864/SRX11716864.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 17:05:11: 37000000 INFO @ Tue, 02 Aug 2022 17:05:16: 31000000 INFO @ Tue, 02 Aug 2022 17:05:21: 38000000 INFO @ Tue, 02 Aug 2022 17:05:28: 32000000 INFO @ Tue, 02 Aug 2022 17:05:31: 39000000 INFO @ Tue, 02 Aug 2022 17:05:40: 33000000 INFO @ Tue, 02 Aug 2022 17:05:41: 40000000 INFO @ Tue, 02 Aug 2022 17:05:51: 41000000 INFO @ Tue, 02 Aug 2022 17:05:53: 34000000 INFO @ Tue, 02 Aug 2022 17:05:53: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 17:05:53: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 17:05:53: #1 total tags in treatment: 19405826 INFO @ Tue, 02 Aug 2022 17:05:53: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 17:05:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 17:05:54: #1 tags after filtering in treatment: 14165353 INFO @ Tue, 02 Aug 2022 17:05:54: #1 Redundant rate of treatment: 0.27 INFO @ Tue, 02 Aug 2022 17:05:54: #1 finished! INFO @ Tue, 02 Aug 2022 17:05:54: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 17:05:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 17:05:55: #2 number of paired peaks: 11 WARNING @ Tue, 02 Aug 2022 17:05:55: Too few paired peaks (11) 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 @ Tue, 02 Aug 2022 17:05:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.10_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/SRX11716864/SRX11716864.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 17:06:05: 35000000 INFO @ Tue, 02 Aug 2022 17:06:17: 36000000 INFO @ Tue, 02 Aug 2022 17:06:28: 37000000 INFO @ Tue, 02 Aug 2022 17:06:40: 38000000 INFO @ Tue, 02 Aug 2022 17:06:52: 39000000 INFO @ Tue, 02 Aug 2022 17:07:04: 40000000 INFO @ Tue, 02 Aug 2022 17:07:16: 41000000 INFO @ Tue, 02 Aug 2022 17:07:18: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 17:07:18: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 17:07:18: #1 total tags in treatment: 19405826 INFO @ Tue, 02 Aug 2022 17:07:18: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 17:07:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 17:07:18: #1 tags after filtering in treatment: 14165353 INFO @ Tue, 02 Aug 2022 17:07:18: #1 Redundant rate of treatment: 0.27 INFO @ Tue, 02 Aug 2022 17:07:18: #1 finished! INFO @ Tue, 02 Aug 2022 17:07:18: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 17:07:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 17:07:20: #2 number of paired peaks: 11 WARNING @ Tue, 02 Aug 2022 17:07:20: Too few paired peaks (11) 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 @ Tue, 02 Aug 2022 17:07:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.20_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/SRX11716864/SRX11716864.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11716864/SRX11716864.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling