monocle3 failed to run graph_test

[caochch]

monocle3 is ok to generate trajectories and pseudotimes but failed to predict genes associated with pseudotime when using graph_test, with an error that I can not address (see below).

Any suggestions will be appreciated.

---

pr_graph_test_res <- graph_test(cds, neighbor_graph="knn", cores=8)
*** Error in `/usr/local/lib64/R/bin/exec/R': free(): invalid pointer: 0x000000001ede68d8 ***
======= Backtrace: =========
/lib64/libc.so.6(+0x81329)[0x7fb2d5b65329]
/usr/local/lib64/R/library/units/libs/units.so(_ZN4Rcpp9exception18record_stack_traceEv+0x1b0)[0x7fb228634530]
/usr/local/lib64/R/library/units/libs/units.so(_ZN4Rcpp9exceptionC2EPKcb+0x73)[0x7fb228638953]
/usr/local/lib64/R/library/units/libs/units.so(ZN4Rcpp4stopIJPcEEEvPKcDpOT+0x3f)[0x7fb22863906f]
/usr/local/lib64/R/library/units/libs/units.so(_ZN4Rcpp17finalizer_wrapperI7ut_unitXadL_Z7ut_freeEEEEvP7SEXPREC+0x0)[0x7fb2286387f0]
/usr/local/lib64/R/library/units/libs/units.so(_units_R_ut_parse+0x6b)[0x7fb22862fd5b]
/usr/local/lib64/R/lib/libR.so(+0x101500)[0x7fb2d6628500]
/usr/local/lib64/R/lib/libR.so(+0x101b28)[0x7fb2d6628b28]
/usr/local/lib64/R/lib/libR.so(+0x143383)[0x7fb2d666a383]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x15493b)[0x7fb2d667b93b]
/usr/local/lib64/R/lib/libR.so(Rf_applyClosure+0x1c1)[0x7fb2d667c6c1]
/usr/local/lib64/R/lib/libR.so(+0x14321a)[0x7fb2d666a21a]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x153a5e)[0x7fb2d667aa5e]
/usr/local/lib64/R/lib/libR.so(+0x1529a2)[0x7fb2d66799a2]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x153a5e)[0x7fb2d667aa5e]
/usr/local/lib64/R/lib/libR.so(+0x1529a2)[0x7fb2d66799a2]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x153a5e)[0x7fb2d667aa5e]
/usr/local/lib64/R/lib/libR.so(+0x1529a2)[0x7fb2d66799a2]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x153a5e)[0x7fb2d667aa5e]
/usr/local/lib64/R/lib/libR.so(+0x1529a2)[0x7fb2d66799a2]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x153a5e)[0x7fb2d667aa5e]
/usr/local/lib64/R/lib/libR.so(+0x1529a2)[0x7fb2d66799a2]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x15493b)[0x7fb2d667b93b]
/usr/local/lib64/R/lib/libR.so(Rf_applyClosure+0x1c1)[0x7fb2d667c6c1]
/usr/local/lib64/R/lib/libR.so(+0x14321a)[0x7fb2d666a21a]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x15493b)[0x7fb2d667b93b]
/usr/local/lib64/R/lib/libR.so(Rf_applyClosure+0x1c1)[0x7fb2d667c6c1]
/usr/local/lib64/R/lib/libR.so(+0x14321a)[0x7fb2d666a21a]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x15493b)[0x7fb2d667b93b]
/usr/local/lib64/R/lib/libR.so(Rf_applyClosure+0x1c1)[0x7fb2d667c6c1]
/usr/local/lib64/R/lib/libR.so(+0x14321a)[0x7fb2d666a21a]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x15493b)[0x7fb2d667b93b]
/usr/local/lib64/R/lib/libR.so(Rf_applyClosure+0x1c1)[0x7fb2d667c6c1]
/usr/local/lib64/R/lib/libR.so(+0x14321a)[0x7fb2d666a21a]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x15493b)[0x7fb2d667b93b]
/usr/local/lib64/R/lib/libR.so(Rf_applyClosure+0x1c1)[0x7fb2d667c6c1]
/usr/local/lib64/R/lib/libR.so(+0x14321a)[0x7fb2d666a21a]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x15493b)[0x7fb2d667b93b]
/usr/local/lib64/R/lib/libR.so(Rf_applyClosure+0x1c1)[0x7fb2d667c6c1]
/usr/local/lib64/R/lib/libR.so(+0x14321a)[0x7fb2d666a21a]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x15493b)[0x7fb2d667b93b]
/usr/local/lib64/R/lib/libR.so(Rf_applyClosure+0x1c1)[0x7fb2d667c6c1]
/usr/local/lib64/R/lib/libR.so(+0x14321a)[0x7fb2d666a21a]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x153a5e)[0x7fb2d667aa5e]
/usr/local/lib64/R/lib/libR.so(+0x1529a2)[0x7fb2d66799a2]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
/usr/local/lib64/R/lib/libR.so(+0x153a5e)[0x7fb2d667aa5e]
/usr/local/lib64/R/lib/libR.so(+0x1529a2)[0x7fb2d66799a2]
/usr/local/lib64/R/lib/libR.so(Rf_eval+0x178)[0x7fb2d667a0e8]
======= Memory map: ========
00400000-00401000 r-xp 00000000 fd:00 5101588272 /usr/local/lib64/R/bin/exec/R
00600000-00601000 r--p 00000000 fd:00 5101588272 /usr/local/lib64/R/bin/exec/R
00601000-00602000 rw-p 00001000 fd:00 5101588272 /usr/local/lib64/R/bin/exec/R
00781000-4eb6a000 rw-p 00000000 00:00 0 [heap]
7fb202e9c000-7fb227a7b000 rw-p 00000000 00:00 0
7fb227a7b000-7fb227a96000 r-xp 00000000 fd:00 1075687838 /usr/lib64/libudunits2.so.0.1.0
7fb227a96000-7fb227c95000 ---p 0001b000 fd:00 1075687838 /usr/lib64/libudunits2.so.0.1.0
7fb227c95000-7fb227c96000 r--p 0001a000 fd:00 1075687838 /usr/lib64/libudunits2.so.0.1.0
7fb227c96000-7fb227c97000 rw-p 0001b000 fd:00 1075687838 /usr/lib64/libudunits2.so.0.1.0
7fb227c97000-7fb228024000 rw-p 00000000 00:00 0
7fb228024000-7fb22851e000 rw-p 00000000 00:00 0
7fb228622000-7fb22863e000 r-xp 00000000 fd:00 2684512388 /usr/local/lib64/R/library/units/libs/units.so
7fb22863e000-7fb22883e000 ---p 0001c000 fd:00 2684512388 /usr/local/lib64/R/library/units/libs/units.so
7fb22883e000-7fb22883f000 r--p 0001c000 fd:00 2684512388 /usr/local/lib64/R/library/units/libs/units.so
7fb22883f000-7fb228840000 rw-p 0001d000 fd:00 2684512388 /usr/local/lib64/R/library/units/libs/units.so
7fb228840000-7fb228841000 r-xp 00000000 fd:00 2953287456 /usr/local/lib64/R/library/classInt/libs/classInt.so
7fb228841000-7fb228a40000 ---p 00001000 fd:00 2953287456 /usr/local/lib64/R/library/classInt/libs/classInt.so
7fb228a40000-7fb228a41000 r--p 00000000 fd:00 2953287456 /usr/local/lib64/R/library/classInt/libs/classInt.so
7fb228a41000-7fb228a42000 rw-p 00001000 fd:00 2953287456 /usr/local/lib64/R/library/classInt/libs/classInt.so
7fb228a42000-7fb228a46000 r-xp 00000000 fd:00 3264884771 /usr/local/lib64/R/library/KernSmooth/libs/KernSmooth.so
7fb228a46000-7fb228c46000 ---p 00004000 fd:00 3264884771 /usr/local/lib64/R/library/KernSmooth/libs/KernSmooth.so
7fb228c46000-7fb228c47000 r--p 00004000 fd:00 3264884771 /usr/local/lib64/R/library/KernSmooth/libs/KernSmooth.so
7fb228c47000-7fb228c48000 rw-p 00005000 fd:00 3264884771 /usr/local/lib64/R/library/KernSmooth/libs/KernSmooth.so
7fb228c48000-7fb228c5a000 r-xp 00000000 fd:00 4299130365 /usr/local/lib64/R/library/e1071/libs/e1071.so
7fb228c5a000-7fb228e5a000 ---p 00012000 fd:00 4299130365 /usr/local/lib64/R/library/e1071/libs/e1071.so
7fb228e5a000-7fb228e5b000 r--p 00012000 fd:00 4299130365 /usr/local/lib64/R/library/e1071/libs/e1071.so
7fb228e5b000-7fb228e5c000 rw-p 00013000 fd:00 4299130365 /usr/local/lib64/R/library/e1071/libs/e1071.so
7fb228e5c000-7fb228e5f000 r-xp 00000000 fd:00 1879296396 /usr/local/lib64/R/library/class/libs/class.so
7fb228e5f000-7fb22905e000 ---p 00003000 fd:00 1879296396 /usr/local/lib64/R/library/class/libs/class.so
7fb22905e000-7fb22905f000 r--p 00002000 fd:00 1879296396 /usr/local/lib64/R/library/class/libs/class.so
7fb22905f000-7fb229060000 rw-p 00003000 fd:00 1879296396 /usr/local/lib64/R/library/class/libs/class.so
7fb229060000-7fb229069000 r-xp 00000000 fd:00 5905754008 /usr/local/lib64/R/library/proxy/libs/proxy.so
7fb229069000-7fb229268000 ---p 00009000 fd:00 5905754008 /usr/local/lib64/R/library/proxy/libs/proxy.so
7fb229268000-7fb229269000 r--p 00008000 fd:00 5905754008 /usr/local/lib64/R/library/proxy/libs/proxy.so
7fb229269000-7fb22926a000 rw-p 00009000 fd:00 5905754008 /usr/local/lib64/R/library/proxy/libs/proxy.so
7fb22926a000-7fb2b6ddc000 rw-p 00000000 00:00 0
7fb2b6ddc000-7fb2b6dfe000 r-xp 00000000 fd:00 4834536911 /usr/local/lib64/R/library/SeuratObject/libs/SeuratObject.so
7fb2b6dfe000-7fb2b6ffd000 ---p 00022000 fd:00 4834536911 /usr/local/lib64/R/library/SeuratObject/libs/SeuratObject.so
7fb2b6ffd000-7fb2b6ffe000 r--p 00021000 fd:00 4834536911 /usr/local/lib64/R/library/SeuratObject/libs/SeuratObject.so
7fb2b6ffe000-7fb2b6fff000 rw-p 00022000 fd:00 4834536911 /usr/local/lib64/R/library/SeuratObject/libs/SeuratObject.so
7fb2b6fff000-7fb2b7007000 r-xp 00000000 fd:00 6979984793 /usr/local/lib64/R/library/sp/libs/sp.so
7fb2b7007000-7fb2b7206000 ---p 00008000 fd:00 6979984793 /usr/local/lib64/R/library/sp/libs/sp.so
7fb2b7206000-7fb2b7207000 r--p 00007000 fd:00 6979984793 /usr/local/lib64/R/library/sp/libs/sp.so
7fb2b7207000-7fb2b7208000 rw-p 00008000 fd:00 6979984793 /usr/local/lib64/R/library/sp/libs/sp.so
7fb2b7208000-7fb2b7392000 r-xp 00000000 fd:00 327571131 /usr/local/lib64/R/library/RcppAnnoy/libs/RcppAnnoy.so
7fb2b7392000-7fb2b7591000 ---p 0018a000 fd:00 327571131 /usr/local/lib64/R/library/RcppAnnoy/libs/RcppAnnoy.so
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7fb2b759d000-7fb2b84b0000 rw-p 00000000 00:00 0
7fb2b84b0000-7fb2b84c5000 r-xp 00000000 fd:00 269936433 /usr/local/lib64/R/library/monocle3/libs/monocle3.so
7fb2b84c5000-7fb2b86c4000 ---p 00015000 fd:00 269936433 /usr/local/lib64/R/library/monocle3/libs/monocle3.so
7fb2b86c4000-7fb2b86c5000 r--p 00014000 fd:00 269936433 /usr/local/lib64/R/library/monocle3/libs/monocle3.so
7fb2b86c5000-7fb2b86c6000 rw-p 00015000 fd:00 269936433 /usr/local/lib64/R/library/monocle3/libs/monocle3.so
7fb2b86c6000-7fb2b8855000 r-xp 00000000 fd:00 1075601943 /usr/lib64/libgeos-3.4.2.so
7fb2b8855000-7fb2b8a54000 ---p 0018f000 fd:00 1075601943 /usr/lib64/libgeos-3.4.2.so
7fb2b8a54000-7fb2b8a61000 r--p 0018e000 fd:00 1075601943 /usr/lib64/libgeos-3.4.2.so
7fb2b8a61000-7fb2b8a65000 rw-p 0019b000 fd:00 1075601943 /usr/lib64/libgeos-3.4.2.so
7fb2b8a65000-7fb2b8a66000 rw-p 00000000 00:00 0
7fb2b8a66000-7fb2b8b20000 r-xp 00000000 fd:00 1088793533 /usr/lib64/libzstd.so.1.5.5
7fb2b8b20000-7fb2b8d1f000 ---p 000ba000 fd:00 1088793533 /usr/lib64/libzstd.so.1.5.5
7fb2b8d1f000-7fb2b8d20000 r--p 000b9000 fd:00 1088793533 /usr/lib64/libzstd.so.1.5.5
7fb2b8d20000-7fb2b8d21000 rw-p 000ba000 fd:00 1088793533 /usr/lib64/libzstd.so.1.5.5
7fb2b8d21000-7fb2b8fbb000 r-xp 00000000 fd:00 1074571578 /usr/lib64/libhdf5.so.8.0.2
7fb2b8fbb000-7fb2b91ba000 ---p 0029a000 fd:00 1074571578 /usr/lib64/libhdf5.so.8.0.2
7fb2b91ba000-7fb2b91bf000 r--p 00299000 fd:00 1074571578 /usr/lib64/libhdf5.so.8.0.2
7fb2b91bf000-7fb2b91c6000 rw-p 0029e000 fd:00 1074571578 /usr/lib64/libhdf5.so.8.0.2
7fb2b91c6000-7fb2b91c7000 rw-p 00000000 00:00 0
7fb2b91c7000-7fb2b91ef000 r-xp 00000000 fd:00 1073743083 /usr/lib64/libexpat.so.1.6.0
7fb2b91ef000-7fb2b93ef000 ---p 00028000 fd:00 1073743083 /usr/lib64/libexpat.so.1.6.0
7fb2b93ef000-7fb2b93f1000 r--p 00028000 fd:00 1073743083 /usr/lib64/libexpat.so.1.6.0
7fb2b93f1000-7fb2b93f2000 rw-p 0002a000 fd:00 1073743083 /usr/lib64/libexpat.so.1.6.0
7fb2b93f2000-7fb2b94a3000 r-xp 00000000 fd:00 1073743146 /usr/lib64/libsqlite3.so.0.8.6
7fb2b94a3000-7fb2b96a2000 ---p 000b1000 fd:00 1073743146 /usr/lib64/libsqlite3.so.0.8.6
7fb2b96a2000-7fb2b96a4000 r--p 000b0000 fd:00 1073743146 /usr/lib64/libsqlite3.so.0.8.6
7fb2b96a4000-7fb2b96a7000 rw-p 000b2000 fd:00 1073743146 /usr/lib64/libsqlite3.so.0.8.6
7fb2b96a7000-7fb2b96f3000 r-xp 00000000 fd:00 1088793534 /usr/lib64/libwebp.so.4.0.2
7fb2b96f3000-7fb2b98f2000 ---p 0004c000 fd:00 1088793534 /usr/lib64/libwebp.so.4.0.2
7fb2b98f2000-7fb2b98f3000 r--p 0004b000 fd:00 1088793534 /usr/lib64/libwebp.so.4.0.2
7fb2b98f3000-7fb2b98f4000 rw-p 0004c000 fd:00 1088793534 /usr/lib64/libwebp.so.4.0.2
7fb2b98f4000-7fb2b98f7000 rw-p 00000000 00:00 0
7fb2b98f7000-7fb2b991c000 r-xp 00000000 fd:00 1075601945 /usr/lib64/libgeos_c.so.1.8.2
7fb2b991c000-7fb2b9b1b000 ---p 00025000 fd:00 1075601945 /usr/lib64/libgeos_c.so.1.8.2
7fb2b9b1b000-7fb2b9b1d000 r--p 00024000 fd:00 1075601945 /usr/lib64/libgeos_c.so.1.8.2
7fb2b9b1d000-7fb2b9b1e000 rw-p 00026000 fd:00 1075601945 /usr/lib64/libgeos_c.so.1.8.2
7fb2b9b1e000-7fb2b9d58000 r-xp 00000000 fd:00 3491129238 /usr/local/lib/libproj.so.15.1.1
7fb2b9d58000-7fb2b9f58000 ---p 0023a000 fd:00 3491129238 /usr/local/lib/libproj.so.15.1.1
7fb2b9f58000-7fb2b9f6a000 r--p 0023a000 fd:00 3491129238 /usr/local/lib/libproj.so.15.1.1
7fb2b9f6a000-7fb2b9f6e000 rw-p 0024c000 fd:00 3491129238 /usr/local/lib/libproj.so.15.1.1
7fb2b9f6e000-7fb2b9f70000 rw-p 00000000 00:00 0
7fb2b9f70000-7fb2bb139000 r-xp 00000000 fd:00 3490415038 /usr/local/lib/libgdal.so.20.5.4
7fb2bb139000-7fb2bb339000 ---p 011c9000 fd:00 3490415038 /usr/local/lib/libgdal.so.20.5.4
7fb2bb339000-7fb2bb41d000 r--p 011c9000 fd:00 3490415038 /usr/local/lib/libgdal.so.20.5.4
7fb2bb41d000-7fb2bb437000 rw-p 012ad000 fd:00 3490415038 /usr/local/lib/libgdal.so.20.5.4

Aborted (core dumped)