Homebrew/Macports/Fink/etc are not supported and likely to conflict with 
Sage. What kind of error do you get from "make distclean"? You can try to 
exclude non-system stuff from the PATH to ignore 3rd party software:

export PATH=/usr/bin:/bin:/usr/sbin:/sbin
make distclean
make


On Wednesday, April 30, 2014 3:26:41 AM UTC+1, Andrew wrote:
>
>
>
> On Tuesday, 29 April 2014 01:06:35 UTC+10, Volker Braun wrote:
>>
>> Does your compile always fail in different places with different errors? 
>> Maybe its more relevant to look at the output of "diskutil info /" and/or 
>> install smartmontools...
>>
>
> Sorry, I am still having issues. I tried re-installing the xcode command 
> line toolsbut this didn't help. Is it possible some of the code I installed 
> with brew is causing a conflict?
>
> As Volker pointed out the log I attached was incomplete. This is because 
> `make distclean` ends with an error (so the second make in `make distclean 
> && make` never happened).
>
> Regarding the errors, they are not always the same. I've had `xcrun` not 
> finding strip and clang. On the other hand, I  have been trying to fix the 
> issue in various ways, so the state of my system when I run make is not 
> stable either...
>
> The packages that are failing to build are always:
>
>    - finite_word.py
>    - mpir-2.6.0.p3
>    - r-3.0.0.2.pl
>    - singular-3.1.5.p9
>
> Finally, you asked about diskutil and smartmontools. The output from these 
> are:
>
> smartctl 6.2 2013-07-26 r3841 [x86_64-apple-darwin13.1.0] (local build)
> Copyright (C) 2002-13, Bruce Allen, Christian Franke, www.smartmontools.
> org
>
> === START OF READ SMART DATA SECTION ===
> SMART Self-test log structure revision number 1
> Num  Test_Description    Status                  Remaining  LifeTime(hours
> )  LBA_of_first_error
> # 1  Extended offline    Completed without error       00%     14811       
>   -
> # 2  Short offline       Completed without error       00%     14808       
>   -
>
> and
>
> sage: diskutil info /
>    Device Identifier:        disk0s2
>    Device Node:              /dev/disk0s2
>    Part of Whole:            disk0
>    Device / Media Name:      Customer
>
>    Volume Name:              Mac
>    Escaped with Unicode:     Mac
>
>    Mounted:                  Yes
>    Mount Point:              /
>    Escaped with Unicode:     /
>
>    File System Personality:  Journaled HFS+
>    Type (Bundle):            hfs
>    Name (User Visible):      Mac OS Extended (Journaled)
>    Journal:                  Journal size 40960 KB at offset 0x1638e000
>    Owners:                   Enabled
>
>    Partition Type:           Apple_HFS
>    OS Can Be Installed:      Yes
>    Recovery Disk:            disk0s3
>    Media Type:               Generic
>    Protocol:                 SATA
>    SMART Status:             Verified
>    Volume UUID:              5FD5CA9F-2845-3735-9024-426A671CE311
>
>    Total Size:               499.2 GB (499248099328 Bytes) (exactly 
> 975093944 512-Byte-Units)
>    Volume Free Space:        60.4 GB (60374343680 Bytes) (exactly 
> 117918640 512-Byte-Units)
>    Device Block Size:        512 Bytes
>
>    Read-Only Media:          No
>    Read-Only Volume:         No
>    Ejectable:                No
>
>    Whole:                    No
>    Internal:                 Yes
>    Solid State:              No
>
>
>
>
>
>

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