2023-05-19 19:11:36 [time] __start__
2023-05-19 19:11:36 [monitor] cgroup memory limit of 107374182400 bytes detected
2023-05-19 19:11:41 [monitor] Process tree:
                                 PID VSZ(mb) RSS(mb) Procs  Read(mb) (calls) Write(mb) (calls) COMMAND
                              220551  270340      12     8         0      46         0       7 /gpfs/share/apps/spaceranger/1.2.1/external/martian/bin/mrjob /gpfs/share/apps/spaceranger/1.2.1/lib/bin/cr_lib martian write_pos_bam join /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/journal/SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.ufe8a680090 
                              220559      36       5     1         0      57         0      25   /gpfs/share/apps/spaceranger/1.2.1/lib/bin/cr_lib martian write_pos_bam join /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/journal/SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.ufe8a680090 
                              220561      24      10     1         0   83899         0     654     samtools cat -b /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files/pos_sorted_single_sample.fofn -o /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files/pos_sorted_single_sample.bam 
2023-05-19 19:11:41 [monitor] Stage exceeded its address space quota (using 264.1, allowed 7G)
2023-05-19 19:11:46 [monitor] Process tree:
                                 PID VSZ(mb) RSS(mb) Procs  Read(mb) (calls) Write(mb) (calls) COMMAND
                              220551  270340      12     8         0      95         0       9 /gpfs/share/apps/spaceranger/1.2.1/external/martian/bin/mrjob /gpfs/share/apps/spaceranger/1.2.1/lib/bin/cr_lib martian write_pos_bam join /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/journal/SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.ufe8a680090 
                              220559      36       5     1         0  113810         0     914   /gpfs/share/apps/spaceranger/1.2.1/lib/bin/cr_lib martian write_pos_bam join /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/journal/SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.ufe8a680090 
                              220601  154285       5     5         0   34429         0       0     samtools index -@ 3 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files/pos_sorted_single_sample.bam /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files/pos_sorted_single_sample.bam.bai 
2023-05-19 19:11:46 [monitor] Stage exceeded its address space quota (using 414.7, allowed 7G)
2023-05-19 19:11:51 [monitor] Process tree:
                                 PID VSZ(mb) RSS(mb) Procs  Read(mb) (calls) Write(mb) (calls) COMMAND
                              220551  270340      12     8         0     148         0      11 /gpfs/share/apps/spaceranger/1.2.1/external/martian/bin/mrjob /gpfs/share/apps/spaceranger/1.2.1/lib/bin/cr_lib martian write_pos_bam join /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/journal/SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.ufe8a680090 
                              220559      36       5     1         0  113810         0     914   /gpfs/share/apps/spaceranger/1.2.1/lib/bin/cr_lib martian write_pos_bam join /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/journal/SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.ufe8a680090 
                              220601  154288       8     5         0   81781         0       0     samtools index -@ 3 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files/pos_sorted_single_sample.bam /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files/pos_sorted_single_sample.bam.bai 
2023-05-19 19:11:51 [monitor] Stage exceeded its address space quota (using 414.7, allowed 7G)
2023-05-19 19:11:56 [monitor] Process tree:
                                 PID VSZ(mb) RSS(mb) Procs  Read(mb) (calls) Write(mb) (calls) COMMAND
                              220551  270340      12     8         0     201         0      13 /gpfs/share/apps/spaceranger/1.2.1/external/martian/bin/mrjob /gpfs/share/apps/spaceranger/1.2.1/lib/bin/cr_lib martian write_pos_bam join /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/journal/SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.ufe8a680090 
                              220559      36       5     1         0  113810         0     914   /gpfs/share/apps/spaceranger/1.2.1/lib/bin/cr_lib martian write_pos_bam join /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/journal/SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.ufe8a680090 
                              220601  154291      10     5         0  129430         0       0     samtools index -@ 3 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files/pos_sorted_single_sample.bam /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files/pos_sorted_single_sample.bam.bai 
2023-05-19 19:11:56 [monitor] Stage exceeded its address space quota (using 414.7, allowed 7G)
2023-05-19 19:12:01 [monitor] Process tree:
                                 PID VSZ(mb) RSS(mb) Procs  Read(mb) (calls) Write(mb) (calls) COMMAND
                              220551  270340      12     8         0     254         0      15 /gpfs/share/apps/spaceranger/1.2.1/external/martian/bin/mrjob /gpfs/share/apps/spaceranger/1.2.1/lib/bin/cr_lib martian write_pos_bam join /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/journal/SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.ufe8a680090 
                              220559      36       5     1         0  113810         0     914   /gpfs/share/apps/spaceranger/1.2.1/lib/bin/cr_lib martian write_pos_bam join /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/journal/SPATIAL_RNA_COUNTER_CS.SPATIAL_RNA_COUNTER._BASIC_SPATIAL_RNA_COUNTER.WRITE_POS_BAM.fork0.ufe8a680090 
                              220601  154296      15     5         0  177364         0       0     samtools index -@ 3 /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files/pos_sorted_single_sample.bam /gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/WRITE_POS_BAM/fork0/join-ufe8a680090/files/pos_sorted_single_sample.bam.bai 
2023-05-19 19:12:01 [monitor] Stage exceeded its address space quota (using 414.7, allowed 7G)
2023-05-19 19:12:06 [time] __end__
