Error when numpy is being called

[medcelerate]

I am getting this error when the python script is being called

Found array with 0 sample(s) (shape=(0, 16)) while a minimum of 1 is required.

Full trace

Traceback (most recent call last):
  File "/hpc/users/clarke16/ConusPipe/bin/predict2.py", line 67, in <module>
    y_hat = log_reg.predict(Xtest)
  File "/hpc/users/clarke16/.conda/envs/mari/lib/python3.7/site-packages/sklearn/linear_model/base.py", line 289, in predict
    scores = self.decision_function(X)
  File "/hpc/users/clarke16/.conda/envs/mari/lib/python3.7/site-packages/sklearn/linear_model/base.py", line 265, in decision_function
    X = check_array(X, accept_sparse='csr')
  File "/hpc/users/clarke16/.conda/envs/mari/lib/python3.7/site-packages/sklearn/utils/validation.py", line 550, in check_array
    context))
ValueError: Found array with 0 sample(s) (shape=(0, 16)) while a minimum of 1 is required.

[qingl0331]

The error explains itself well.. You have to check the input file of the predict2.py --$sample.X.test.txt, is it all zeors?

…

On Mon, Jun 10, 2019 at 9:59 AM medcelerate ***@***.***> wrote: I am getting this error when the python script is being called Found array with 0 sample(s) (shape=(0, 16)) while a minimum of 1 is required. Full trace Traceback (most recent call last): File "/hpc/users/clarke16/ConusPipe/bin/predict2.py", line 67, in <module> y_hat = log_reg.predict(Xtest) File "/hpc/users/clarke16/.conda/envs/mari/lib/python3.7/site-packages/sklearn/linear_model/base.py", line 289, in predict scores = self.decision_function(X) File "/hpc/users/clarke16/.conda/envs/mari/lib/python3.7/site-packages/sklearn/linear_model/base.py", line 265, in decision_function X = check_array(X, accept_sparse='csr') File "/hpc/users/clarke16/.conda/envs/mari/lib/python3.7/site-packages/sklearn/utils/validation.py", line 550, in check_array context)) ValueError: Found array with 0 sample(s) (shape=(0, 16)) while a minimum of 1 is required. — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#1?email_source=notifications&email_token=AB6ATI2ZCPDNWOC3PRO7G3TPZZ26JA5CNFSM4HWUZ5Q2YY3PNVWWK3TUL52HS4DFUVEXG43VMWVGG33NNVSW45C7NFSM4GYTGLBQ>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AB6ATI6MYTDOM7FPXPFEYRDPZZ26JANCNFSM4HWUZ5QQ> .

[medcelerate]

The file is empty, why is conuspipe generating an empty file?

[qingl0331]

The file is empty because there must something wrong when running the pipline.. What does the standard error say?

…

On Tue, Jun 11, 2019 at 10:57 AM medcelerate ***@***.***> wrote: The file is empty, why is conuspipe generating an empty file? — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#1?email_source=notifications&email_token=AB6ATI4KCVUPN3Z7NHU2KJLPZ7KQBA5CNFSM4HWUZ5Q2YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGODXNZ6KY#issuecomment-500932395>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AB6ATI4H2MPY6BPFFPXSF63PZ7KQBANCNFSM4HWUZ5QQ> .

[medcelerate]

Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080.
Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080.
Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080.
Use of uninitialized value $cysPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 376, <FH> line 115080.
Use of uninitialized value $cysSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 371, <FH> line 115082.
Use of uninitialized value $cysPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 376, <FH> line 115082.
Use of uninitialized value $cysMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 381, <FH> line 115082.
Use of uninitialized value $cysSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 371, <FH> line 115084.
Use of uninitialized value $cysPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 376, <FH> line 115084.
Use of uninitialized value $cysPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 376, <FH> line 115086.
Use of uninitialized value $cysSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 371, <FH> line 115088.
Use of uninitialized value $cysMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 381, <FH> line 115088.
Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115090.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115090.
Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115090.
Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115092.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115092.
Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115092.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115094.
Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115094.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115096.
Use of uninitialized value $pcPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 379, <FH> line 115096.
Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115096.
Use of uninitialized value $ncMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 385, <FH> line 115096.
Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115098.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115098.
Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115098.
Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115100.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115100.
Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115100.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115102.
Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115102.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115104.
Use of uninitialized value $pcPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 379, <FH> line 115104.
Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115104.
Use of uninitialized value $ncMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 385, <FH> line 115104.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115106.
Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115108.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115108.
Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115108.
Use of uninitialized value $ncMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 385, <FH> line 115108.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115110.
Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115112.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115112.
Use of uninitialized value $pcPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 379, <FH> line 115112.
Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115114.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115114.
Use of uninitialized value $cysMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 381, <FH> line 115114.
Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115116.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115116.
Use of uninitialized value $cysMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 381, <FH> line 115116.
Use of uninitialized value $pcPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 379, <FH> line 115118.
Use of uninitialized value $cysMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 381, <FH> line 115118.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115120.
Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115122.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115122.
Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115124.
Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115124.
Use of uninitialized value $cysPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 376, <FH> line 115126.
Use of uninitialized value $ncMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 385, <FH> line 115126.
/hpc/packages/minerva-centos7/anaconda3/2018.12/lib/python3.7/site-packages/sklearn/linear_model/logistic.py:433: FutureWarning: Default solver will be changed to 'lbfgs' in 0.22. Specify a solver to silence this warning.
  FutureWarning)
Traceback (most recent call last):
  File "/hpc/users/clarke16/ConusPipe/bin/predict2.py", line 66, in <module>
    log_reg.fit(X, y)
  File "/hpc/packages/minerva-centos7/anaconda3/2018.12/lib/python3.7/site-packages/sklearn/linear_model/logistic.py", line 1285, in fit
    accept_large_sparse=solver != 'liblinear')
  File "/hpc/packages/minerva-centos7/anaconda3/2018.12/lib/python3.7/site-packages/sklearn/utils/validation.py", line 756, in check_X_y
    estimator=estimator)
  File "/hpc/packages/minerva-centos7/anaconda3/2018.12/lib/python3.7/site-packages/sklearn/utils/validation.py", line 582, in check_array
    context))
ValueError: Found array with 0 sample(s) (shape=(0, 16)) while a minimum of 1 is required.
readline() on closed filehandle FH1 at ./discoveryPipe.4methods.simple.v2.pl line 222, <FH1> line 115126.

[qingl0331]

It looks like something wrong with the previous steps . Can you successfully run the test data set in your system with the pipeline ?

…

On Tue, Jun 11, 2019 at 12:27 PM medcelerate ***@***.***> wrote: Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 356, <FH> line 115080. Use of uninitialized value in addition (+) at ./discoveryPipe.4methods.simple.v2.pl line 357, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 360, <FH> line 115080. Use of uninitialized value in string eq at ./discoveryPipe.4methods.simple.v2.pl line 362, <FH> line 115080. Use of uninitialized value $cysPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 376, <FH> line 115080. Use of uninitialized value $cysSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 371, <FH> line 115082. Use of uninitialized value $cysPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 376, <FH> line 115082. Use of uninitialized value $cysMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 381, <FH> line 115082. Use of uninitialized value $cysSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 371, <FH> line 115084. Use of uninitialized value $cysPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 376, <FH> line 115084. Use of uninitialized value $cysPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 376, <FH> line 115086. Use of uninitialized value $cysSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 371, <FH> line 115088. Use of uninitialized value $cysMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 381, <FH> line 115088. Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115090. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115090. Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115090. Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115092. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115092. Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115092. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115094. Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115094. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115096. Use of uninitialized value $pcPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 379, <FH> line 115096. Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115096. Use of uninitialized value $ncMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 385, <FH> line 115096. Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115098. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115098. Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115098. Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115100. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115100. Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115100. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115102. Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115102. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115104. Use of uninitialized value $pcPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 379, <FH> line 115104. Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115104. Use of uninitialized value $ncMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 385, <FH> line 115104. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115106. Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115108. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115108. Use of uninitialized value $ncPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 380, <FH> line 115108. Use of uninitialized value $ncMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 385, <FH> line 115108. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115110. Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115112. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115112. Use of uninitialized value $pcPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 379, <FH> line 115112. Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115114. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115114. Use of uninitialized value $cysMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 381, <FH> line 115114. Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115116. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115116. Use of uninitialized value $cysMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 381, <FH> line 115116. Use of uninitialized value $pcPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 379, <FH> line 115118. Use of uninitialized value $cysMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 381, <FH> line 115118. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115120. Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115122. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115122. Use of uninitialized value $pcSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 374, <FH> line 115124. Use of uninitialized value $ncSs in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 375, <FH> line 115124. Use of uninitialized value $cysPp in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 376, <FH> line 115126. Use of uninitialized value $ncMTox in division (/) at ./discoveryPipe.4methods.simple.v2.pl line 385, <FH> line 115126. /hpc/packages/minerva-centos7/anaconda3/2018.12/lib/python3.7/site-packages/sklearn/linear_model/logistic.py:433: FutureWarning: Default solver will be changed to 'lbfgs' in 0.22. Specify a solver to silence this warning. FutureWarning) Traceback (most recent call last): File "/hpc/users/clarke16/ConusPipe/bin/predict2.py", line 66, in <module> log_reg.fit(X, y) File "/hpc/packages/minerva-centos7/anaconda3/2018.12/lib/python3.7/site-packages/sklearn/linear_model/logistic.py", line 1285, in fit accept_large_sparse=solver != 'liblinear') File "/hpc/packages/minerva-centos7/anaconda3/2018.12/lib/python3.7/site-packages/sklearn/utils/validation.py", line 756, in check_X_y estimator=estimator) File "/hpc/packages/minerva-centos7/anaconda3/2018.12/lib/python3.7/site-packages/sklearn/utils/validation.py", line 582, in check_array context)) ValueError: Found array with 0 sample(s) (shape=(0, 16)) while a minimum of 1 is required. readline() on closed filehandle FH1 at ./discoveryPipe.4methods.simple.v2.pl line 222, <FH1> line 115126. — You are receiving this because you commented. 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