daligner error

[smm19900210]

my command is：HPC.daligner test.dam | bash it occurs some error message: daligner: Block test.3 contains reads < 14bp long ! Run DBsplit. daligner: Block test.4 contains reads < 14bp long ! Run DBsplit. daligner: Block test.5 contains reads < 14bp long ! Run DBsplit. daligner: Block test.5 contains reads < 14bp long ! Run DBsplit. daligner: Block test.6 contains reads < 14bp long ! Run DBsplit. daligner: Block test.6 contains reads < 14bp long ! Run DBsplit. daligner: Block test.7 contains reads < 14bp long ! Run DBsplit. daligner: Block test.7 contains reads < 14bp long ! Run DBsplit. daligner: Block test.8 contains reads < 14bp long ! Run DBsplit. daligner: Block test.8 contains reads < 14bp long ! Run DBsplit. daligner: Block test.4 contains reads < 14bp long ! Run DBsplit. daligner: Block test.7 contains reads < 14bp long ! Run DBsplit. test.1.test.1: 2,464,004 all OK test.9.test.1: 2,677,940 all OK test.1: 2,464,004 all OK test.2: Trace spacing < 0 test.2: Not OK, see stderr test.3: Trace spacing < 0 test.3: Not OK, see stderr test.4: Trace spacing < 0 test.4: Not OK, see stderr test.5: Trace spacing < 0 test.5: Not OK, see stderr test.6: Trace spacing < 0 test.6: Not OK, see stderr test.7: Trace spacing < 0 test.7: Not OK, see stderr test.8: Trace spacing < 0 test.8: Not OK, see stderr test.9: 2,677,940 all OK rm: cannot remove test.2.test.*.las': 没有那个文件或目录 rm: cannot removetest.3.test..las': 没有那个文件或目录 rm: cannot remove `test.4.test..las': 没有那个文件或目录 rm: cannot remove test.5.test.*.las': 没有那个文件或目录 rm: cannot removetest.6.test..las': 没有那个文件或目录 rm: cannot remove `test.7.test..las': 没有那个文件或目录 rm: cannot remove `test.8.test.*.las': 没有那个文件或目录

[thegenemyers]

You have reads less than the k-mer size (14) in you data set, i.e. the
reads are too short (and not too long as per your other e-mail). DBsplit -x20 will solve this. Please read the documentation. -- Gene

On 8/22/18, 8:06 AM, smm19900210 wrote:

my command is：HPC.daligner test.dam | bash it occurs some error message: daligner: Block test.3 contains reads < 14bp long ! Run DBsplit. daligner: Block test.4 contains reads < 14bp long ! Run DBsplit. daligner: Block test.5 contains reads < 14bp long ! Run DBsplit. daligner: Block test.5 contains reads < 14bp long ! Run DBsplit. daligner: Block test.6 contains reads < 14bp long ! Run DBsplit. daligner: Block test.6 contains reads < 14bp long ! Run DBsplit. daligner: Block test.7 contains reads < 14bp long ! Run DBsplit. daligner: Block test.7 contains reads < 14bp long ! Run DBsplit. daligner: Block test.8 contains reads < 14bp long ! Run DBsplit. daligner: Block test.8 contains reads < 14bp long ! Run DBsplit. daligner: Block test.4 contains reads < 14bp long ! Run DBsplit. daligner: Block test.7 contains reads < 14bp long ! Run DBsplit. test.1.test.1: 2,464,004 all OK test.9.test.1: 2,677,940 all OK test.1: 2,464,004 all OK test.2: Trace spacing < 0 test.2: Not OK, see stderr test.3: Trace spacing < 0 test.3: Not OK, see stderr test.4: Trace spacing < 0 test.4: Not OK, see stderr test.5: Trace spacing < 0 test.5: Not OK, see stderr test.6: Trace spacing < 0 test.6: Not OK, see stderr test.7: Trace spacing < 0 test.7: Not OK, see stderr test.8: Trace spacing < 0 test.8: Not OK, see stderr test.9: 2,677,940 all OK rm: cannot remove |test.2.test..las': 没有那个文件或目录 rm: cannot remove|test.3.test./.las': 没有那个文件或目录 rm: cannot remove |test.4.test..las': 没有那个文件或目录 rm: cannot remove|test.5.test./.las': 没有那个文件或目录 rm: cannot remove |test.6.test.*.las': 没有那个文件或目录 rm: cannot remove|test.7.test./.las': 没有那个文件或目录 rm: cannot remove `test.8.test./.las': 没有那个文件或目录

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