5112964 reads; of these: 5112964 (100.00%) were unpaired; of these: 3198167 (62.55%) aligned 0 times 1049509 (20.53%) aligned exactly 1 time 865288 (16.92%) aligned >1 times 37.45% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T001F_S100_R1.fastq bam-ified! 4585343 reads; of these: 4585343 (100.00%) were unpaired; of these: 3114858 (67.93%) aligned 0 times 936315 (20.42%) aligned exactly 1 time 534170 (11.65%) aligned >1 times 32.07% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T001FX_S219_R1.fastq bam-ified! 5002494 reads; of these: 5002494 (100.00%) were unpaired; of these: 3312944 (66.23%) aligned 0 times 1027630 (20.54%) aligned exactly 1 time 661920 (13.23%) aligned >1 times 33.77% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T001G_S112_R1.fastq bam-ified! 4980476 reads; of these: 4980476 (100.00%) were unpaired; of these: 3221736 (64.69%) aligned 0 times 971889 (19.51%) aligned exactly 1 time 786851 (15.80%) aligned >1 times 35.31% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T002F_S101_R1.fastq bam-ified! 4000223 reads; of these: 4000223 (100.00%) were unpaired; of these: 2579009 (64.47%) aligned 0 times 895731 (22.39%) aligned exactly 1 time 525483 (13.14%) aligned >1 times 35.53% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T002FX_S220_R1.fastq bam-ified! 3853845 reads; of these: 3853845 (100.00%) were unpaired; of these: 2540092 (65.91%) aligned 0 times 831607 (21.58%) aligned exactly 1 time 482146 (12.51%) aligned >1 times 34.09% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T002G_S113_R1.fastq bam-ified! 4837946 reads; of these: 4837946 (100.00%) were unpaired; of these: 2902075 (59.99%) aligned 0 times 1006350 (20.80%) aligned exactly 1 time 929521 (19.21%) aligned >1 times 40.01% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T003F_S102_R1.fastq bam-ified! 4639206 reads; of these: 4639206 (100.00%) were unpaired; of these: 3013457 (64.96%) aligned 0 times 1109258 (23.91%) aligned exactly 1 time 516491 (11.13%) aligned >1 times 35.04% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T003FX_S221_R1.fastq bam-ified! 4379717 reads; of these: 4379717 (100.00%) were unpaired; of these: 2949225 (67.34%) aligned 0 times 952108 (21.74%) aligned exactly 1 time 478384 (10.92%) aligned >1 times 32.66% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T003G_S114_R1.fastq bam-ified! 4639911 reads; of these: 4639911 (100.00%) were unpaired; of these: 2937553 (63.31%) aligned 0 times 916252 (19.75%) aligned exactly 1 time 786106 (16.94%) aligned >1 times 36.69% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T004F_S103_R1.fastq bam-ified! 5514914 reads; of these: 5514914 (100.00%) were unpaired; of these: 3630013 (65.82%) aligned 0 times 1247697 (22.62%) aligned exactly 1 time 637204 (11.55%) aligned >1 times 34.18% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T004FX_S222_R1.fastq bam-ified! 3845630 reads; of these: 3845630 (100.00%) were unpaired; of these: 2520348 (65.54%) aligned 0 times 868303 (22.58%) aligned exactly 1 time 456979 (11.88%) aligned >1 times 34.46% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T004G_S115_R1.fastq bam-ified! 3928545 reads; of these: 3928545 (100.00%) were unpaired; of these: 2466830 (62.79%) aligned 0 times 733707 (18.68%) aligned exactly 1 time 728008 (18.53%) aligned >1 times 37.21% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T005F_S104_R1.fastq bam-ified! 4750977 reads; of these: 4750977 (100.00%) were unpaired; of these: 3081658 (64.86%) aligned 0 times 1089740 (22.94%) aligned exactly 1 time 579579 (12.20%) aligned >1 times 35.14% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T005FX_S223_R1.fastq bam-ified! 5465760 reads; of these: 5465760 (100.00%) were unpaired; of these: 3700779 (67.71%) aligned 0 times 1211123 (22.16%) aligned exactly 1 time 553858 (10.13%) aligned >1 times 32.29% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T005G_S116_R1.fastq bam-ified! 4159998 reads; of these: 4159998 (100.00%) were unpaired; of these: 2478130 (59.57%) aligned 0 times 801197 (19.26%) aligned exactly 1 time 880671 (21.17%) aligned >1 times 40.43% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T006F_S105_R1.fastq bam-ified! 4848955 reads; of these: 4848955 (100.00%) were unpaired; of these: 3084098 (63.60%) aligned 0 times 1085704 (22.39%) aligned exactly 1 time 679153 (14.01%) aligned >1 times 36.40% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T006FX_S224_R1.fastq bam-ified! 5143017 reads; of these: 5143017 (100.00%) were unpaired; of these: 3515483 (68.35%) aligned 0 times 1054239 (20.50%) aligned exactly 1 time 573295 (11.15%) aligned >1 times 31.65% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T006G_S117_R1.fastq bam-ified! 5271072 reads; of these: 5271072 (100.00%) were unpaired; of these: 3407089 (64.64%) aligned 0 times 1051479 (19.95%) aligned exactly 1 time 812504 (15.41%) aligned >1 times 35.36% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T007F_S106_R1.fastq bam-ified! 4190079 reads; of these: 4190079 (100.00%) were unpaired; of these: 2421347 (57.79%) aligned 0 times 950808 (22.69%) aligned exactly 1 time 817924 (19.52%) aligned >1 times 42.21% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T007FX_S225_R1.fastq bam-ified! 3961796 reads; of these: 3961796 (100.00%) were unpaired; of these: 2569742 (64.86%) aligned 0 times 953262 (24.06%) aligned exactly 1 time 438792 (11.08%) aligned >1 times 35.14% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T007G_S118_R1.fastq bam-ified! 5806394 reads; of these: 5806394 (100.00%) were unpaired; of these: 3778537 (65.08%) aligned 0 times 1179637 (20.32%) aligned exactly 1 time 848220 (14.61%) aligned >1 times 34.92% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T008F_S107_R1.fastq bam-ified! 3602783 reads; of these: 3602783 (100.00%) were unpaired; of these: 2373636 (65.88%) aligned 0 times 767258 (21.30%) aligned exactly 1 time 461889 (12.82%) aligned >1 times 34.12% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T008FX_S226_R1.fastq bam-ified! 6281801 reads; of these: 6281801 (100.00%) were unpaired; of these: 4180024 (66.54%) aligned 0 times 1416603 (22.55%) aligned exactly 1 time 685174 (10.91%) aligned >1 times 33.46% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T008G_S119_R1.fastq bam-ified! 4430602 reads; of these: 4430602 (100.00%) were unpaired; of these: 2716429 (61.31%) aligned 0 times 960998 (21.69%) aligned exactly 1 time 753175 (17.00%) aligned >1 times 38.69% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T009F_S108_R1.fastq bam-ified! 4421028 reads; of these: 4421028 (100.00%) were unpaired; of these: 2687633 (60.79%) aligned 0 times 1054362 (23.85%) aligned exactly 1 time 679033 (15.36%) aligned >1 times 39.21% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T009FX_S227_R1.fastq bam-ified! 5278905 reads; of these: 5278905 (100.00%) were unpaired; of these: 3456216 (65.47%) aligned 0 times 1218297 (23.08%) aligned exactly 1 time 604392 (11.45%) aligned >1 times 34.53% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T009G_S120_R1.fastq bam-ified! 5203960 reads; of these: 5203960 (100.00%) were unpaired; of these: 3143168 (60.40%) aligned 0 times 1115499 (21.44%) aligned exactly 1 time 945293 (18.16%) aligned >1 times 39.60% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T010F_S109_R1.fastq bam-ified! 3970562 reads; of these: 3970562 (100.00%) were unpaired; of these: 2479852 (62.46%) aligned 0 times 954794 (24.05%) aligned exactly 1 time 535916 (13.50%) aligned >1 times 37.54% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T010FX_S228_R1.fastq bam-ified! 4514651 reads; of these: 4514651 (100.00%) were unpaired; of these: 2926283 (64.82%) aligned 0 times 1069228 (23.68%) aligned exactly 1 time 519140 (11.50%) aligned >1 times 35.18% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T010G_S121_R1.fastq bam-ified! 3705417 reads; of these: 3705417 (100.00%) were unpaired; of these: 2443254 (65.94%) aligned 0 times 750211 (20.25%) aligned exactly 1 time 511952 (13.82%) aligned >1 times 34.06% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T011F_S110_R1.fastq bam-ified! 4035338 reads; of these: 4035338 (100.00%) were unpaired; of these: 2614484 (64.79%) aligned 0 times 907156 (22.48%) aligned exactly 1 time 513698 (12.73%) aligned >1 times 35.21% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T011FX_S229_R1.fastq bam-ified! 4561966 reads; of these: 4561966 (100.00%) were unpaired; of these: 2999598 (65.75%) aligned 0 times 1061809 (23.28%) aligned exactly 1 time 500559 (10.97%) aligned >1 times 34.25% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T011G_S122_R1.fastq bam-ified! 5450282 reads; of these: 5450282 (100.00%) were unpaired; of these: 3632666 (66.65%) aligned 0 times 1103565 (20.25%) aligned exactly 1 time 714051 (13.10%) aligned >1 times 33.35% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T012F_S111_R1.fastq bam-ified! 4720330 reads; of these: 4720330 (100.00%) were unpaired; of these: 3106078 (65.80%) aligned 0 times 1092702 (23.15%) aligned exactly 1 time 521550 (11.05%) aligned >1 times 34.20% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T012FX_S230_R1.fastq bam-ified! 4137785 reads; of these: 4137785 (100.00%) were unpaired; of these: 2782925 (67.26%) aligned 0 times 939073 (22.70%) aligned exactly 1 time 415787 (10.05%) aligned >1 times 32.74% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T012G_S123_R1.fastq bam-ified! 4310005 reads; of these: 4310005 (100.00%) were unpaired; of these: 2823074 (65.50%) aligned 0 times 787773 (18.28%) aligned exactly 1 time 699158 (16.22%) aligned >1 times 34.50% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T014F_S171_R1.fastq bam-ified! 4753949 reads; of these: 4753949 (100.00%) were unpaired; of these: 3182180 (66.94%) aligned 0 times 1010328 (21.25%) aligned exactly 1 time 561441 (11.81%) aligned >1 times 33.06% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T014G_S183_R1.fastq bam-ified! 5230498 reads; of these: 5230498 (100.00%) were unpaired; of these: 3467101 (66.29%) aligned 0 times 1013248 (19.37%) aligned exactly 1 time 750149 (14.34%) aligned >1 times 33.71% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T015F_S172_R1.fastq bam-ified! 4881633 reads; of these: 4881633 (100.00%) were unpaired; of these: 3251612 (66.61%) aligned 0 times 1004593 (20.58%) aligned exactly 1 time 625428 (12.81%) aligned >1 times 33.39% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T015G_S184_R1.fastq bam-ified! 4047786 reads; of these: 4047786 (100.00%) were unpaired; of these: 2722873 (67.27%) aligned 0 times 751068 (18.56%) aligned exactly 1 time 573845 (14.18%) aligned >1 times 32.73% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T016F_S173_R1.fastq bam-ified! 4175932 reads; of these: 4175932 (100.00%) were unpaired; of these: 2890252 (69.21%) aligned 0 times 822286 (19.69%) aligned exactly 1 time 463394 (11.10%) aligned >1 times 30.79% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T016G_S185_R1.fastq bam-ified! 4043212 reads; of these: 4043212 (100.00%) were unpaired; of these: 2699323 (66.76%) aligned 0 times 806861 (19.96%) aligned exactly 1 time 537028 (13.28%) aligned >1 times 33.24% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T017F_S174_R1.fastq bam-ified! 4210866 reads; of these: 4210866 (100.00%) were unpaired; of these: 2828506 (67.17%) aligned 0 times 921250 (21.88%) aligned exactly 1 time 461110 (10.95%) aligned >1 times 32.83% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T017G_S186_R1.fastq bam-ified! 4853716 reads; of these: 4853716 (100.00%) were unpaired; of these: 3201692 (65.96%) aligned 0 times 1003585 (20.68%) aligned exactly 1 time 648439 (13.36%) aligned >1 times 34.04% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T019F_S175_R1.fastq bam-ified! 4434793 reads; of these: 4434793 (100.00%) were unpaired; of these: 2957685 (66.69%) aligned 0 times 999437 (22.54%) aligned exactly 1 time 477671 (10.77%) aligned >1 times 33.31% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T019G_S187_R1.fastq bam-ified! 4444022 reads; of these: 4444022 (100.00%) were unpaired; of these: 2937531 (66.10%) aligned 0 times 895247 (20.14%) aligned exactly 1 time 611244 (13.75%) aligned >1 times 33.90% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T021F_S176_R1.fastq bam-ified! 4555709 reads; of these: 4555709 (100.00%) were unpaired; of these: 3043572 (66.81%) aligned 0 times 1026833 (22.54%) aligned exactly 1 time 485304 (10.65%) aligned >1 times 33.19% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T021G_S188_R1.fastq bam-ified! 5130046 reads; of these: 5130046 (100.00%) were unpaired; of these: 3362175 (65.54%) aligned 0 times 1104023 (21.52%) aligned exactly 1 time 663848 (12.94%) aligned >1 times 34.46% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T023F_S177_R1.fastq bam-ified! 4396345 reads; of these: 4396345 (100.00%) were unpaired; of these: 2938547 (66.84%) aligned 0 times 950244 (21.61%) aligned exactly 1 time 507554 (11.54%) aligned >1 times 33.16% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T023G_S189_R1.fastq bam-ified! 4356553 reads; of these: 4356553 (100.00%) were unpaired; of these: 2952600 (67.77%) aligned 0 times 859191 (19.72%) aligned exactly 1 time 544762 (12.50%) aligned >1 times 32.23% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T025F_S178_R1.fastq bam-ified! 4363800 reads; of these: 4363800 (100.00%) were unpaired; of these: 2979640 (68.28%) aligned 0 times 883309 (20.24%) aligned exactly 1 time 500851 (11.48%) aligned >1 times 31.72% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T025G_S190_R1.fastq bam-ified! 4672597 reads; of these: 4672597 (100.00%) were unpaired; of these: 3068028 (65.66%) aligned 0 times 894923 (19.15%) aligned exactly 1 time 709646 (15.19%) aligned >1 times 34.34% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T026F_S179_R1.fastq bam-ified! 5069141 reads; of these: 5069141 (100.00%) were unpaired; of these: 3455277 (68.16%) aligned 0 times 1056688 (20.85%) aligned exactly 1 time 557176 (10.99%) aligned >1 times 31.84% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T026G_S191_R1.fastq bam-ified! 4802021 reads; of these: 4802021 (100.00%) were unpaired; of these: 3209511 (66.84%) aligned 0 times 917763 (19.11%) aligned exactly 1 time 674747 (14.05%) aligned >1 times 33.16% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T027F_S180_R1.fastq bam-ified! 3738008 reads; of these: 3738008 (100.00%) were unpaired; of these: 2537244 (67.88%) aligned 0 times 761213 (20.36%) aligned exactly 1 time 439551 (11.76%) aligned >1 times 32.12% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T027G_S192_R1.fastq bam-ified! 4792035 reads; of these: 4792035 (100.00%) were unpaired; of these: 3073152 (64.13%) aligned 0 times 1045210 (21.81%) aligned exactly 1 time 673673 (14.06%) aligned >1 times 35.87% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T029F_S195_R1.fastq bam-ified! 4605510 reads; of these: 4605510 (100.00%) were unpaired; of these: 3156485 (68.54%) aligned 0 times 938103 (20.37%) aligned exactly 1 time 510922 (11.09%) aligned >1 times 31.46% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T029G_S207_R1.fastq bam-ified! 4636056 reads; of these: 4636056 (100.00%) were unpaired; of these: 3105686 (66.99%) aligned 0 times 953175 (20.56%) aligned exactly 1 time 577195 (12.45%) aligned >1 times 33.01% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T030F_S196_R1.fastq bam-ified! 2480843 reads; of these: 2480843 (100.00%) were unpaired; of these: 1678292 (67.65%) aligned 0 times 526550 (21.22%) aligned exactly 1 time 276001 (11.13%) aligned >1 times 32.35% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T030G_S208_R1.fastq bam-ified! 5826464 reads; of these: 5826464 (100.00%) were unpaired; of these: 3906232 (67.04%) aligned 0 times 1232914 (21.16%) aligned exactly 1 time 687318 (11.80%) aligned >1 times 32.96% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T131G_S141_R1.fastq bam-ified! 4365247 reads; of these: 4365247 (100.00%) were unpaired; of these: 3014475 (69.06%) aligned 0 times 799054 (18.30%) aligned exactly 1 time 551718 (12.64%) aligned >1 times 30.94% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T132F_S130_R1.fastq bam-ified! 3761263 reads; of these: 3761263 (100.00%) were unpaired; of these: 2541584 (67.57%) aligned 0 times 808935 (21.51%) aligned exactly 1 time 410744 (10.92%) aligned >1 times 32.43% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T132G_S142_R1.fastq bam-ified! 3819960 reads; of these: 3819960 (100.00%) were unpaired; of these: 2532628 (66.30%) aligned 0 times 746390 (19.54%) aligned exactly 1 time 540942 (14.16%) aligned >1 times 33.70% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T133F_S131_R1.fastq bam-ified! 5900041 reads; of these: 5900041 (100.00%) were unpaired; of these: 3981110 (67.48%) aligned 0 times 1301401 (22.06%) aligned exactly 1 time 617530 (10.47%) aligned >1 times 32.52% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T133G_S143_R1.fastq bam-ified! 5473605 reads; of these: 5473605 (100.00%) were unpaired; of these: 3827690 (69.93%) aligned 0 times 985753 (18.01%) aligned exactly 1 time 660162 (12.06%) aligned >1 times 30.07% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T134F_S132_R1.fastq bam-ified! 5184462 reads; of these: 5184462 (100.00%) were unpaired; of these: 3514590 (67.79%) aligned 0 times 1079885 (20.83%) aligned exactly 1 time 589987 (11.38%) aligned >1 times 32.21% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T134G_S144_R1.fastq bam-ified! 5487294 reads; of these: 5487294 (100.00%) were unpaired; of these: 3654674 (66.60%) aligned 0 times 1101023 (20.06%) aligned exactly 1 time 731597 (13.33%) aligned >1 times 33.40% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T135F_S133_R1.fastq bam-ified! 4370992 reads; of these: 4370992 (100.00%) were unpaired; of these: 2995580 (68.53%) aligned 0 times 953788 (21.82%) aligned exactly 1 time 421624 (9.65%) aligned >1 times 31.47% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T135G_S145_R1.fastq bam-ified! 5044499 reads; of these: 5044499 (100.00%) were unpaired; of these: 3410293 (67.60%) aligned 0 times 1002142 (19.87%) aligned exactly 1 time 632064 (12.53%) aligned >1 times 32.40% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T136F_S134_R1.fastq bam-ified! 4272900 reads; of these: 4272900 (100.00%) were unpaired; of these: 2918549 (68.30%) aligned 0 times 931522 (21.80%) aligned exactly 1 time 422829 (9.90%) aligned >1 times 31.70% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T136G_S146_R1.fastq bam-ified! 4922379 reads; of these: 4922379 (100.00%) were unpaired; of these: 3270843 (66.45%) aligned 0 times 1003724 (20.39%) aligned exactly 1 time 647812 (13.16%) aligned >1 times 33.55% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T137F_S135_R1.fastq bam-ified! 4904948 reads; of these: 4904948 (100.00%) were unpaired; of these: 3379123 (68.89%) aligned 0 times 955225 (19.47%) aligned exactly 1 time 570600 (11.63%) aligned >1 times 31.11% overall alignment rate [bam_sort_core] merging from 0 files and 8 in-memory blocks... T137G_S147_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T001F_S100_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T001F_S100_R1.sam": No such file or directory T001F_S100_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T001FX_S219_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T001FX_S219_R1.sam": No such file or directory T001FX_S219_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T001G_S112_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T001G_S112_R1.sam": No such file or directory T001G_S112_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T002F_S101_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T002F_S101_R1.sam": No such file or directory T002F_S101_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T002FX_S220_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T002FX_S220_R1.sam": No such file or directory T002FX_S220_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T002G_S113_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T002G_S113_R1.sam": No such file or directory T002G_S113_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T003F_S102_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T003F_S102_R1.sam": No such file or directory T003F_S102_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T003FX_S221_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T003FX_S221_R1.sam": No such file or directory T003FX_S221_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T003G_S114_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T003G_S114_R1.sam": No such file or directory T003G_S114_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T004F_S103_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T004F_S103_R1.sam": No such file or directory T004F_S103_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T004FX_S222_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T004FX_S222_R1.sam": No such file or directory T004FX_S222_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T004G_S115_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T004G_S115_R1.sam": No such file or directory T004G_S115_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T005F_S104_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T005F_S104_R1.sam": No such file or directory T005F_S104_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T005FX_S223_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T005FX_S223_R1.sam": No such file or directory T005FX_S223_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T005G_S116_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T005G_S116_R1.sam": No such file or directory T005G_S116_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T006F_S105_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T006F_S105_R1.sam": No such file or directory T006F_S105_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T006FX_S224_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T006FX_S224_R1.sam": No such file or directory T006FX_S224_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T006G_S117_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T006G_S117_R1.sam": No such file or directory T006G_S117_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T007F_S106_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T007F_S106_R1.sam": No such file or directory T007F_S106_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T007FX_S225_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T007FX_S225_R1.sam": No such file or directory T007FX_S225_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T007G_S118_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T007G_S118_R1.sam": No such file or directory T007G_S118_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T008F_S107_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T008F_S107_R1.sam": No such file or directory T008F_S107_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T008FX_S226_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T008FX_S226_R1.sam": No such file or directory T008FX_S226_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T008G_S119_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T008G_S119_R1.sam": No such file or directory T008G_S119_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T009F_S108_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T009F_S108_R1.sam": No such file or directory T009F_S108_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T009FX_S227_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T009FX_S227_R1.sam": No such file or directory T009FX_S227_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T009G_S120_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T009G_S120_R1.sam": No such file or directory T009G_S120_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T010F_S109_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T010F_S109_R1.sam": No such file or directory T010F_S109_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T010FX_S228_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T010FX_S228_R1.sam": No such file or directory T010FX_S228_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T010G_S121_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T010G_S121_R1.sam": No such file or directory T010G_S121_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T011F_S110_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T011F_S110_R1.sam": No such file or directory T011F_S110_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T011FX_S229_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T011FX_S229_R1.sam": No such file or directory T011FX_S229_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T011G_S122_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T011G_S122_R1.sam": No such file or directory T011G_S122_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T012F_S111_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T012F_S111_R1.sam": No such file or directory T012F_S111_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T012FX_S230_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T012FX_S230_R1.sam": No such file or directory T012FX_S230_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T012G_S123_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T012G_S123_R1.sam": No such file or directory T012G_S123_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T014F_S171_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T014F_S171_R1.sam": No such file or directory T014F_S171_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T014G_S183_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T014G_S183_R1.sam": No such file or directory T014G_S183_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T015F_S172_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T015F_S172_R1.sam": No such file or directory T015F_S172_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T015G_S184_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T015G_S184_R1.sam": No such file or directory T015G_S184_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T016F_S173_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T016F_S173_R1.sam": No such file or directory T016F_S173_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T016G_S185_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T016G_S185_R1.sam": No such file or directory T016G_S185_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T017F_S174_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T017F_S174_R1.sam": No such file or directory T017F_S174_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T017G_S186_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T017G_S186_R1.sam": No such file or directory T017G_S186_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T019F_S175_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T019F_S175_R1.sam": No such file or directory T019F_S175_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T019G_S187_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T019G_S187_R1.sam": No such file or directory T019G_S187_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T021F_S176_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T021F_S176_R1.sam": No such file or directory T021F_S176_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T021G_S188_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T021G_S188_R1.sam": No such file or directory T021G_S188_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T023F_S177_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T023F_S177_R1.sam": No such file or directory T023F_S177_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T023G_S189_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T023G_S189_R1.sam": No such file or directory T023G_S189_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T025F_S178_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T025F_S178_R1.sam": No such file or directory T025F_S178_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T025G_S190_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T025G_S190_R1.sam": No such file or directory T025G_S190_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T026F_S179_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T026F_S179_R1.sam": No such file or directory T026F_S179_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T026G_S191_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T026G_S191_R1.sam": No such file or directory T026G_S191_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T027F_S180_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T027F_S180_R1.sam": No such file or directory T027F_S180_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T027G_S192_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T027G_S192_R1.sam": No such file or directory T027G_S192_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T029F_S195_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T029F_S195_R1.sam": No such file or directory T029F_S195_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T029G_S207_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T029G_S207_R1.sam": No such file or directory T029G_S207_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T030F_S196_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T030F_S196_R1.sam": No such file or directory T030F_S196_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T030G_S208_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T030G_S208_R1.sam": No such file or directory T030G_S208_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T131G_S141_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T131G_S141_R1.sam": No such file or directory T131G_S141_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T132F_S130_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T132F_S130_R1.sam": No such file or directory T132F_S130_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T132G_S142_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T132G_S142_R1.sam": No such file or directory T132G_S142_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T133F_S131_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T133F_S131_R1.sam": No such file or directory T133F_S131_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T133G_S143_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T133G_S143_R1.sam": No such file or directory T133G_S143_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T134F_S132_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T134F_S132_R1.sam": No such file or directory T134F_S132_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T134G_S144_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T134G_S144_R1.sam": No such file or directory T134G_S144_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T135F_S133_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T135F_S133_R1.sam": No such file or directory T135F_S133_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T135G_S145_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T135G_S145_R1.sam": No such file or directory T135G_S145_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T136F_S134_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T136F_S134_R1.sam": No such file or directory T136F_S134_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T136G_S146_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T136G_S146_R1.sam": No such file or directory T136G_S146_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T137F_S135_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T137F_S135_R1.sam": No such file or directory T137F_S135_R1.fastq bam-ified! (ERR): "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/sequences/SRR6051615-mytilus_trossulus_transcriptome.fasta" does not exist Exiting now ... [E::hts_open_format] Failed to open file "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T137G_S147_R1.sam" : No such file or directory samtools sort: can't open "/home/shared/8TB_HDD_02/mattgeorgephd/PSMFC-mytilus-byssus-pilot/hisat2_tross_sam/T137G_S147_R1.sam": No such file or directory T137G_S147_R1.fastq bam-ified!